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samd1a sterile alpha motif domain containing 1a [ Danio rerio (zebrafish) ]

Gene ID: 768149, updated on 9-Dec-2024

Summary

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Official Symbol
samd1aprovided by ZNC
Official Full Name
sterile alpha motif domain containing 1aprovided by ZNC
Primary source
ZFIN:ZDB-GENE-061013-517
See related
Ensembl:ENSDARG00000102810 AllianceGenome:ZFIN:ZDB-GENE-061013-517
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
zgc:153652
Summary
Predicted to enable chromatin binding activity and histone binding activity. Predicted to be involved in negative regulation of DNA-templated transcription. Predicted to be active in nucleus. Orthologous to human SAMD1 (sterile alpha motif domain containing 1). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs
all
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Genomic context

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See samd1a in Genome Data Viewer
Location:
chromosome: 3
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 3 NC_007114.7 (49425791..49447949, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 3 NC_007114.6 (45280380..45302538, complement)

Chromosome 3 - NC_007114.7Genomic Context describing neighboring genes Neighboring gene si:ch73-167f10.1 Neighboring gene trans-2,3-enoyl-CoA reductase a Neighboring gene protein kinase, cAMP-dependent, catalytic, alpha, genome duplicate a Neighboring gene uncharacterized LOC101882145 Neighboring gene anti-silencing function 1Ba histone chaperone

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. Knockdown screening of chromatin binding and regulatory proteins in zebrafish identified Suz12b as a regulator of tfpia and an antithrombotic drug target. Raman R, et al. Sci Rep, 2021 Jul 27. PMID 34315984, Free PMC Article
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
  4. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables chromatin binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables histone binding IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in negative regulation of DNA-templated transcription IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
sterile alpha motif domain containing 1a

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001316989.1 → NP_001303918.1  sterile alpha motif domain containing 1a

    Status: VALIDATED

    Source sequence(s)
    CR847534, DR726818, EH439251, EH465187, EH590533
    UniProtKB/TrEMBL
    A0A0R4IFY9, A0A8M1P2M5
    Related
    ENSDARP00000131835.2, ENSDART00000169047.2
    Conserved Domains (2) summary
    cd09583
    Location:299 → 367
    SAM_Atherin-like; SAM domain of Atherin/Atherin-like subfamily
    smart00454
    Location:299 → 355
    SAM; Sterile alpha motif

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007114.7 Reference GRCz11 Primary Assembly

    Range
    49425791..49447949 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001077292.1: Suppressed sequence

    Description
    NM_001077292.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
Nucleotide Protein Strain
Heading Accession and Version

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