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SAMD1 sterile alpha motif domain containing 1 [ Homo sapiens (human) ]

Gene ID: 90378, updated on 6-Sep-2022

Summary

Official Symbol
SAMD1provided by HGNC
Official Full Name
sterile alpha motif domain containing 1provided by HGNC
Primary source
HGNC:HGNC:17958
See related
Ensembl:ENSG00000141858 AllianceGenome:HGNC:17958
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
Predicted to enable chromatin binding activity and histone binding activity. Predicted to be involved in negative regulation of transcription, DNA-templated. Predicted to be located in cytoplasm and extracellular region. Predicted to be active in nucleus. [provided by Alliance of Genome Resources, Apr 2022]
Annotation information
Annotation category: suggests misassembly
Annotation category: partial on reference assembly
Expression
Ubiquitous expression in colon (RPKM 8.2), brain (RPKM 8.2) and 25 other tissues See more
Orthologs
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Genomic context

See SAMD1 in Genome Data Viewer
Location:
19p13.12
Exon count:
6
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (14087851..14090751, complement)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (14214143..14217361, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (14198663..14201563, complement)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene microRNA 1199 Neighboring gene MISP family member 3 Neighboring gene chromosome 19 open reading frame 67 Neighboring gene protein kinase cAMP-activated catalytic subunit alpha Neighboring gene uncharacterized LOC124904642 Neighboring gene anti-silencing function 1B histone chaperone

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables chromatin binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables chromatin binding IDA
Inferred from Direct Assay
more info
PubMed 
enables histone binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables low-density lipoprotein particle binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in chromatin organization IEA
Inferred from Electronic Annotation
more info
 
involved_in foam cell differentiation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in lipoprotein lipid oxidation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in negative regulation of DNA-templated transcription IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in negative regulation of transcription by RNA polymerase II ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in protein homooligomerization IDA
Inferred from Direct Assay
more info
PubMed 
involved_in regulation of DNA methylation-dependent heterochromatin formation IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
located_in chromosome IEA
Inferred from Electronic Annotation
more info
 
is_active_in extracellular space ISS
Inferred from Sequence or Structural Similarity
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
is_active_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
sterile alpha motif domain-containing protein 1
Names
SAM domain containing 1
atherin

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_138352.3NP_612361.1  sterile alpha motif domain-containing protein 1

    See identical proteins and their annotated locations for NP_612361.1

    Status: VALIDATED

    Source sequence(s)
    AC022098, AY453840, BC065477
    UniProtKB/Swiss-Prot
    Q6SPF0, Q96IM4
    Related
    ENSP00000431971.2, ENST00000533683.7
    Conserved Domains (2) summary
    cd09583
    Location:459527
    SAM_Atherin-like; SAM domain of Atherin/Atherin-like subfamily
    smart00454
    Location:459525
    SAM; Sterile alpha motif

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000019.10 Reference GRCh38.p14 Primary Assembly

    Range
    14087851..14090751 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 PATCHES

Genomic

  1. NW_021160022.1 Reference GRCh38.p14 PATCHES

    Range
    299692..302910 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060943.1 Alternate T2T-CHM13v2.0

    Range
    14214143..14217361 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)