Melopsittacus undulatus isolate bMelUnd1 chromosome W, bMelUnd1.mat.Z, whole genome shotgun sequence.
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Archelosauria; Archosauria; Dinosauria; Saurischia; Theropoda; Coelurosauria; Aves; Neognathae; Psittaciformes; Psittaculidae; Melopsittacus.
REFSEQ INFORMATION: The reference sequence is identical to\nCM022663.1.\nAssembly name: bMelUnd1.mat.Z\nThe genomic sequence for this RefSeq record is from the\nwhole-genome assembly released by the G10K on 2020/04/13. The\noriginal whole-genome shotgun project has the accession\nJAAVWG000000000.1.\n\n##Genome-Assembly-Data-START##\nAssembly Provider :: G10K\nAssembly Date :: 24-FEB-2020\nAssembly Method :: TrioCanu v. 1.8; purge_dups v. 1.0.0;\n Scaff 10x v. 4.1.0; Bionano solve v.\n 3.2.1_04122018; Salsa2 HiC v. 2.2; Arrow\n polishing and gap filling v.\n smrtlink_6.0.0.47841; Longranger Align v.\n 2.2.2; Freebayes v. 1.3.1; gEVAL manual\n curation v. 2020-02-24; VGP assembly\n pipeline v. 1.6\nAssembly Name :: bMelUnd1.mat.Z\nDiploid :: Principal pseudohaplotype\nGenome Representation :: Full\nExpected Final Version :: No\nGenome Coverage :: 61.11x\nSequencing Technology :: PacBio Sequel I CLR; Illumina NovaSeq;\n Arima Genomics Hi-C; Bionano Genomics DLS\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI\nAnnotation Status :: Full annotation\nAnnotation Name :: Melopsittacus undulatus Annotation\n Release 104\nAnnotation Version :: 104\nAnnotation Pipeline :: NCBI eukaryotic genome annotation\n pipeline\nAnnotation Software Version :: 8.4\nAnnotation Method :: Best-placed RefSeq; Gnomon\nFeatures Annotated :: Gene; mRNA; CDS; ncRNA\n##Genome-Annotation-Data-END##
Derived by automated computational analysis using gene prediction method: Gnomon.
zinc finger SWIM domain-containing protein 6-like, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 mRNA, 11 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 1 sample with support for all annotated introns
zinc finger SWIM domain-containing protein 6-like, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 mRNA, 3 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 1 sample with support for all annotated introns
zinc finger SWIM domain-containing protein 6-like, transcript variant X3
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 mRNA, 2 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 1 sample with support for all annotated introns
zinc finger SWIM domain-containing protein 6-like isoform X1
zinc finger SWIM domain-containing protein 6-like isoform X2
zinc finger SWIM domain-containing protein 6-like isoform X3
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein
E3 ubiquitin-protein ligase RNF166, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein, and 100% coverage of the annotated genomic feature by RNAseq alignments
E3 ubiquitin-protein ligase RNF166 isoform X1
E3 ubiquitin-protein ligase RNF166, transcript variant X3
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 1 sample with support for all annotated introns
E3 ubiquitin-protein ligase RNF166, transcript variant X4
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 100% coverage of the annotated genomic feature by RNAseq alignments, including 5 samples with support for all annotated introns
E3 ubiquitin-protein ligase RNF166, transcript variant X2
E3 ubiquitin-protein ligase RNF166 isoform X2
E3 ubiquitin-protein ligase RNF166 isoform X3
zinc finger CCCH domain-containing protein 18-like, transcript variant X7
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 2 samples with support for all annotated introns
zinc finger CCCH domain-containing protein 18-like, transcript variant X5
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 5 samples with support for all annotated introns
zinc finger CCCH domain-containing protein 18-like, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 3 samples with support for all annotated introns
zinc finger CCCH domain-containing protein 18-like, transcript variant X2
zinc finger CCCH domain-containing protein 18-like, transcript variant X3
zinc finger CCCH domain-containing protein 18-like, transcript variant X8
zinc finger CCCH domain-containing protein 18-like, transcript variant X6
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 EST, 2 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 4 samples with support for all annotated introns
zinc finger CCCH domain-containing protein 18-like, transcript variant X4
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 EST, 1 Protein, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 3 samples with support for all annotated introns
zinc finger CCCH domain-containing protein 18-like isoform X5
zinc finger CCCH domain-containing protein 18-like isoform X4
zinc finger CCCH domain-containing protein 18-like isoform X3
zinc finger CCCH domain-containing protein 18-like isoform X2
zinc finger CCCH domain-containing protein 18-like isoform X1
zinc finger CCCH domain-containing protein 18-like isoform X6
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 3 Proteins
nuclear factor of activated T-cells 5-like
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 3 ESTs, 8 Proteins, and 99% coverage of the annotated genomic feature by RNAseq alignments
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 5 Proteins
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 14 Proteins, and 6% coverage of the annotated genomic feature by RNAseq alignments
26S proteasome non-ATPase regulatory subunit 7-like
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 mRNA, 2 ESTs, 15 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 5 samples with support for all annotated introns
zinc finger protein 319-like, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 4 samples with support for all annotated introns
zinc finger protein 319-like, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein, and 4% coverage of the annotated genomic feature by RNAseq alignments
cilia- and flagella-associated protein 20-like
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 11 Proteins, and 99% coverage of the annotated genomic feature by RNAseq alignments, including 5 samples with support for all annotated introns
The sequence of the model RefSeq protein was modified relative to this genomic sequence to represent the inferred CDS: substituted 1 base at 1 genomic stop codon; Derived by automated computational analysis using gene prediction method: Gnomon.
LOW QUALITY PROTEIN: cilia- and flagella-associated protein 20-like
casein kinase II subunit alpha'-like, transcript variant X2
casein kinase II subunit alpha'-like, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 mRNA, 8 ESTs, 18 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 5 samples with support for all annotated introns
casein kinase II subunit alpha'-like isoform X2
casein kinase II subunit alpha'-like isoform X1
protein NDRG4-like, transcript variant X5
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 30 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 1 sample with support for all annotated introns
protein NDRG4-like, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 31 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 1 sample with support for all annotated introns
protein NDRG4-like, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 1 sample with support for all annotated introns
protein NDRG4-like, transcript variant X6
protein NDRG4-like, transcript variant X4
protein NDRG4-like, transcript variant X3
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 mRNAs, 33 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 1 sample with support for all annotated introns
neuropilin and tolloid-like protein 2, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 6 ESTs, 15 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 3 samples with support for all annotated introns
neuropilin and tolloid-like protein 2, transcript variant X3
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 ESTs, 1 Protein, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 2 samples with support for all annotated introns
neuropilin and tolloid-like protein 2, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 6 ESTs, 7 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 4 samples with support for all annotated introns
neuropilin and tolloid-like protein 2 isoform X1
neuropilin and tolloid-like protein 2 isoform X3
neuropilin and tolloid-like protein 2 isoform X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 100% coverage of the annotated genomic feature by RNAseq alignments, including 4 samples with support for all annotated introns
uncharacterized protein LOC117438019 isoform X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 61% coverage of the annotated genomic feature by RNAseq alignments
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 11 Proteins, and 40% coverage of the annotated genomic feature by RNAseq alignments
adhesion G protein-coupled receptor G3-like
The sequence of the model RefSeq transcript was modified relative to this genomic sequence to represent the inferred CDS: inserted 2 bases in 1 codon; deleted 1 base in 1 codon; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 Proteins
The sequence of the model RefSeq protein was modified relative to this genomic sequence to represent the inferred CDS: inserted 2 bases in 1 codon; deleted 1 base in 1 codon; substituted 3 bases at 3 genomic stop codons; Derived by automated computational analysis using gene prediction method: Gnomon.
LOW QUALITY PROTEIN: adhesion G protein-coupled receptor G3-like
pancreatic secretory granule membrane major glycoprotein GP2-like
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 2 samples with support for all annotated introns
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 3 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 2 samples with support for all annotated introns
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 20 Proteins
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein, and 19% coverage of the annotated genomic feature by RNAseq alignments
transcriptional repressor CTCF-like, transcript variant X4
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 5 ESTs, 25 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 5 samples with support for all annotated introns
transcriptional repressor CTCF-like, transcript variant X5
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 5 ESTs, 21 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 5 samples with support for all annotated introns
transcriptional repressor CTCF-like, transcript variant X1
transcriptional repressor CTCF-like isoform X1
transcriptional repressor CTCF-like, transcript variant X3
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 5 ESTs, 25 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 2 samples with support for all annotated introns
transcriptional repressor CTCF-like, transcript variant X2
transcriptional repressor CTCF-like isoform X2
transcriptional repressor CTCF-like isoform X3
transcriptional repressor CTCF-like isoform X4
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 mRNAs, 6 ESTs, 27 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 1 sample with support for all annotated introns
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 mRNAs, 6 ESTs, 27 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 2 samples with support for all annotated introns
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 mRNAs, 6 ESTs, 23 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 4 samples with support for all annotated introns
endogenous retrovirus group K member 7 Gag polyprotein-like
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 100% coverage of the annotated genomic feature by RNAseq alignments, including 1 sample with support for all annotated introns
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 ESTs, 21 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 5 samples with support for all annotated introns
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein, and 11% coverage of the annotated genomic feature by RNAseq alignments
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 10 ESTs, 14 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 5 samples with support for all annotated introns
vacuolar protein sorting-associated protein 35-like
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 mRNA, 7 ESTs, 14 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 5 samples with support for all annotated introns
The sequence of the model RefSeq transcript was modified relative to this genomic sequence to represent the inferred CDS: deleted 1 base in 1 codon; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein, and 44% coverage of the annotated genomic feature by RNAseq alignments
The sequence of the model RefSeq protein was modified relative to this genomic sequence to represent the inferred CDS: deleted 1 base in 1 codon; Derived by automated computational analysis using gene prediction method: Gnomon.
LOW QUALITY PROTEIN: prolyl 3-hydroxylase OGFOD1-like
guanine nucleotide-binding protein G(o) subunit alpha, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 15 Proteins, and 99% coverage of the annotated genomic feature by RNAseq alignments, including 3 samples with support for all annotated introns
guanine nucleotide-binding protein G(o) subunit alpha isoform X2
guanine nucleotide-binding protein G(o) subunit alpha, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 21 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 3 samples with support for all annotated introns
guanine nucleotide-binding protein G(o) subunit alpha isoform X1
guanine nucleotide-binding protein G(o) subunit alpha, transcript variant X3
guanine nucleotide-binding protein G(o) subunit alpha isoform X3
Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
transfer RNA threonine (anticodon UGU); Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: nucleotide motif:Rfam:12.0:RF00619
core-binding factor subunit beta-like, transcript variant X3
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 6 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 5 samples with support for all annotated introns
core-binding factor subunit beta-like, transcript variant X4
core-binding factor subunit beta-like, transcript variant X2
core-binding factor subunit beta-like, transcript variant X1
core-binding factor subunit beta-like, transcript variant X6
core-binding factor subunit beta-like, transcript variant X5
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 10 Proteins, and 99% coverage of the annotated genomic feature by RNAseq alignments, including 5 samples with support for all annotated introns
core-binding factor subunit beta-like isoform X1
core-binding factor subunit beta-like isoform X2
core-binding factor subunit beta-like isoform X6
core-binding factor subunit beta-like isoform X3
core-binding factor subunit beta-like isoform X4
core-binding factor subunit beta-like isoform X5
UPF0183 protein C16orf70 homolog, transcript variant X3
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 3 ESTs, 6 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 4 samples with support for all annotated introns
UPF0183 protein C16orf70 homolog, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 3 ESTs, 6 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 5 samples with support for all annotated introns
UPF0183 protein C16orf70 homolog isoform X2
UPF0183 protein C16orf70 homolog, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 3 ESTs, 1 Protein, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 4 samples with support for all annotated introns
UPF0183 protein C16orf70 homolog, transcript variant X4
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 3 ESTs, 1 Protein, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 3 samples with support for all annotated introns
UPF0183 protein C16orf70 homolog isoform X1
UPF0183 protein C16orf70 homolog isoform X3
UPF0183 protein C16orf70 homolog, transcript variant X5
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 3 ESTs, 1 Protein, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 2 samples with support for all annotated introns
UPF0183 protein C16orf70 homolog isoform X4
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 9 Proteins
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 100% coverage of the annotated genomic feature by RNAseq alignments, including 2 samples with support for all annotated introns
nuclear factor of activated T-cells, cytoplasmic 3-like, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 ESTs, 35 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 1 sample with support for all annotated introns
nuclear factor of activated T-cells, cytoplasmic 3-like, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 ESTs, 32 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 1 sample with support for all annotated introns
nuclear factor of activated T-cells, cytoplasmic 3-like, transcript variant X3
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 EST, 25 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 1 sample with support for all annotated introns
nuclear factor of activated T-cells, cytoplasmic 3-like isoform X1
nuclear factor of activated T-cells, cytoplasmic 3-like isoform X2
nuclear factor of activated T-cells, cytoplasmic 3-like isoform X3