Rattus rattus isolate New Zealand chromosome Y, Rrattus_CSIRO_v1, whole genome shotgun sequence.
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus.
REFSEQ INFORMATION: The reference sequence is identical to\nCM021567.1.\nAssembly name: Rrattus_CSIRO_v1\nThe genomic sequence for this RefSeq record is from the\nwhole-genome assembly released by the CSIRO on 2020/03/04. The\noriginal whole-genome shotgun project has the accession\nJAAIVD000000000.1.\n\n##Genome-Assembly-Data-START##\nAssembly Provider :: CSIRO\nAssembly Date :: 01-SEP-2019\nAssembly Method :: Flye v. 2.5; allhic v. 0.9.8; racon v.\n 1.4.6\nAssembly Name :: Rrattus_CSIRO_v1\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 130.0x\nSequencing Technology :: Illumina HiSeq; Oxford Nanopore\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI\nAnnotation Status :: Full annotation\nAnnotation Name :: Rattus rattus Annotation Release 100\nAnnotation Version :: 100\nAnnotation Pipeline :: NCBI eukaryotic genome annotation\n pipeline\nAnnotation Software Version :: 8.3\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.
eukaryotic translation initiation factor 2 subunit 3, Y-linked
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 mRNAs, 22 ESTs, 32 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 24 samples with support for all annotated introns
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 10 ESTs, 32 Proteins, and 75% coverage of the annotated genomic feature by RNAseq alignments
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 EST, 9 Proteins, and 76% coverage of the annotated genomic feature by RNAseq alignments
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 mRNA, 1 EST, 28 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 10 samples with support for all annotated introns
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 Proteins
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 3 Proteins
endogenous retrovirus group K member 10 Pro protein-like
The sequence of the model RefSeq transcript was modified relative to this genomic sequence to represent the inferred CDS: inserted 1 base in 1 codon; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein, and 15% 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: inserted 1 base in 1 codon; Derived by automated computational analysis using gene prediction method: Gnomon.
LOW QUALITY PROTEIN: endogenous retrovirus group K member 10 Pro protein-like
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 EST, 7 Proteins
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 4 Proteins
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 25 Proteins
mediator of RNA polymerase II transcription subunit 14-like
The sequence of the model RefSeq transcript was modified relative to this genomic sequence to represent the inferred CDS: inserted 1 base in 1 codon; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 3 ESTs, 9 Proteins, and 99% coverage of the annotated genomic feature by RNAseq alignments
LOW QUALITY PROTEIN: mediator of RNA polymerase II transcription subunit 14-like
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 ESTs, 3 Proteins, and 86% coverage of the annotated genomic feature by RNAseq alignments
H/ACA ribonucleoprotein complex subunit DKC1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 3 mRNAs, 9 Proteins, and 11% coverage of the annotated genomic feature by RNAseq alignments
zinc finger Y-chromosomal protein 2-like
The sequence of the model RefSeq transcript was modified relative to this genomic sequence to represent the inferred CDS: inserted 3 bases in 2 codons; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 12 Proteins
The sequence of the model RefSeq protein was modified relative to this genomic sequence to represent the inferred CDS: inserted 3 bases in 2 codons; Derived by automated computational analysis using gene prediction method: Gnomon.
LOW QUALITY PROTEIN: zinc finger Y-chromosomal protein 2-like
The sequence of the model RefSeq transcript was modified relative to this genomic sequence to represent the inferred CDS: inserted 5 bases in 3 codons; deleted 3 bases in 2 codons; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 ESTs, 10 Proteins, and 88% 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: inserted 5 bases in 3 codons; deleted 3 bases in 2 codons; Derived by automated computational analysis using gene prediction method: Gnomon.
LOW QUALITY PROTEIN: lysine-specific demethylase 5D-like
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 4 Proteins, and 21% coverage of the annotated genomic feature by RNAseq alignments
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 6 Proteins
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 12 Proteins
RNA-binding motif protein, Y chromosome, family 1 member B-like
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 mRNA, 8 Proteins
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 6 Proteins, and 24% coverage of the annotated genomic feature by RNAseq alignments
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 8 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 6 samples with support for all annotated introns
ubiquitin-like modifier-activating enzyme 1 Y
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 mRNA, 15 Proteins, and 66% coverage of the annotated genomic feature by RNAseq alignments
The sequence of the model RefSeq transcript was modified relative to this genomic sequence to represent the inferred CDS: deleted 2 bases in 1 codon; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 15 Proteins, and 19% 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 2 bases in 1 codon; Derived by automated computational analysis using gene prediction method: Gnomon.
LOW QUALITY PROTEIN: sex-determining region Y protein-like
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 ESTs, 15 Proteins, and 51% coverage of the annotated genomic feature by RNAseq alignments
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 92% coverage of the annotated genomic feature by RNAseq alignments
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 11 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: inserted 1 base in 1 codon; deleted 1 base in 1 codon; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 23 ESTs, 2 Proteins, and 94% 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: inserted 1 base in 1 codon; deleted 1 base in 1 codon; substituted 1 base at 1 genomic stop codon; Derived by automated computational analysis using gene prediction method: Gnomon.
LOW QUALITY PROTEIN: ATP-dependent RNA helicase DDX3Y-like
histone demethylase UTY-like, transcript variant X1
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 10 samples with support for all annotated introns
histone demethylase UTY-like, transcript variant X2
probable ubiquitin carboxyl-terminal hydrolase FAF-X
The sequence of the model RefSeq transcript was modified relative to this genomic sequence to represent the inferred CDS: deleted 3 bases in 2 codons; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 4 Proteins, and 50% 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 3 bases in 2 codons; substituted 3 bases at 3 genomic stop codons; Derived by automated computational analysis using gene prediction method: Gnomon.
LOW QUALITY PROTEIN: probable ubiquitin carboxyl-terminal hydrolase FAF-X
Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: nucleotide motif:Rfam:12.0:RF00026