Mastomys coucha isolate ucsf_1 chromosome Y, UCSF_Mcou_1, whole genome shotgun sequence.
Mastomys coucha (southern multimammate mouse)
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mastomys.
Comparative genomic characterization of the multimammate mouse Mastomys coucha
REFSEQ INFORMATION: The reference sequence is identical to\nCM018030.1.\nAssembly name: UCSF_Mcou_1\nThe genomic sequence for this RefSeq record is from the\nwhole-genome assembly released by the University of California, San\nFrancisco on 2019/09/24. The original whole-genome shotgun project\nhas the accession VSBT00000000.1.\n\n##Genome-Assembly-Data-START##\nAssembly Provider :: University of California, San\n Francisco\nAssembly Date :: 25-SEP-2017\nAssembly Method :: Meraculous v. 2.0.5; Ragout v. 2.0\nAssembly Name :: UCSF_Mcou_1\nGenome Representation :: Full\nExpected Final Version :: Yes\nReference-guided Assembly :: GCA_000001635.2; GCA_000001895.4\nGenome Coverage :: 73.0x\nSequencing Technology :: Illumina HiSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI\nAnnotation Status :: Full annotation\nAnnotation Name :: Mastomys coucha Annotation Release\n 100\nAnnotation Version :: 100\nAnnotation Pipeline :: NCBI eukaryotic genome annotation\n pipeline\nAnnotation Software Version :: 8.2\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: 5 mRNAs, 29 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 1 sample with support for all annotated introns
testis-specific Y-encoded protein 1-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: 9 Proteins, and 80% 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: testis-specific Y-encoded protein 1-like
histone demethylase UTY, transcript variant X5
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 mRNAs, 6 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 1 sample with support for all annotated introns
histone demethylase UTY, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 mRNAs, 7 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 1 sample with support for all annotated introns
histone demethylase UTY, transcript variant X3
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
histone demethylase UTY, transcript variant X4
histone demethylase UTY, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 mRNAs, 21 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 1 sample with support for all annotated introns
histone demethylase UTY, transcript variant X6
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 Proteins, and 18% 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, 14 Proteins, and 97% coverage of the annotated genomic feature by RNAseq alignments
lysine-specific demethylase 5D, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 6 mRNAs, 13 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 1 sample with support for all annotated introns
lysine-specific demethylase 5D, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 3 mRNAs, 3 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 1 sample with support for all annotated introns
lysine-specific demethylase 5D, transcript variant X3
lysine-specific demethylase 5D isoform X1
lysine-specific demethylase 5D isoform X2
probable ubiquitin carboxyl-terminal hydrolase FAF-X, transcript variant X2
probable ubiquitin carboxyl-terminal hydrolase FAF-X, transcript variant X1
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 1 sample with support for all annotated introns
probable ubiquitin carboxyl-terminal hydrolase FAF-X isoform X2
probable ubiquitin carboxyl-terminal hydrolase FAF-X isoform X1
Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: nucleotide motif:Rfam:12.0:RF00026
COORDINATES: nucleotide motif:Rfam:12.0:RF00012