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SPTY2D1 SPT2 chromatin protein domain containing 1 [ Homo sapiens (human) ]

Gene ID: 144108, updated on 12-Oct-2019

Summary

Official Symbol
SPTY2D1provided by HGNC
Official Full Name
SPT2 chromatin protein domain containing 1provided by HGNC
Primary source
HGNC:HGNC:26818
See related
Ensembl:ENSG00000179119
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
Also known as
Spt2
Expression
Ubiquitous expression in bone marrow (RPKM 18.4), gall bladder (RPKM 8.3) and 25 other tissues See more
Orthologs

Genomic context

See SPTY2D1 in Genome Data Viewer
Location:
11p15.1
Exon count:
7
Annotation release Status Assembly Chr Location
109.20190905 current GRCh38.p13 (GCF_000001405.39) 11 NC_000011.10 (18606401..18634823, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (18627948..18656020, complement)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene UEV and lactate/malate dehyrogenase domains Neighboring gene Sharpr-MPRA regulatory region 13786 Neighboring gene uncharacterized LOC112268073 Neighboring gene mitochondrial carrier 1 pseudogene Neighboring gene SPTY2D1 opposite strand Neighboring gene uncharacterized LOC105376578 Neighboring gene serine and arginine rich splicing factor 3 pseudogene

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

Phenotypes

NHGRI GWAS Catalog

Description
Biological, clinical and population relevance of 95 loci for blood lipids.
NHGRI GWA Catalog
Discovery and refinement of loci associated with lipid levels.
NHGRI GWA Catalog

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ39441, DKFZp686I068, DKFZp686F1942

Gene Ontology Provided by GOA

Function Evidence Code Pubs
DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
RNA polymerase I core binding ISS
Inferred from Sequence or Structural Similarity
more info
 
histone binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
histone binding IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
histone exchange IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
histone exchange IMP
Inferred from Mutant Phenotype
more info
PubMed 
nucleosome assembly IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleosome assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of chromatin assembly IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of chromatin assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of transcription, DNA-templated IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of transcription, DNA-templated IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
cellular_component ND
No biological Data available
more info
 
nucleolus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleolus IDA
Inferred from Direct Assay
more info
 
nucleolus ISS
Inferred from Sequence or Structural Similarity
more info
 
nucleoplasm IDA
Inferred from Direct Assay
more info
 

General protein information

Preferred Names
protein SPT2 homolog
Names
SPT2 domain-containing protein 1
SPT2, Suppressor of Ty, domain containing 1

NCBI Reference Sequences (RefSeq)

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_194285.3NP_919261.2  protein SPT2 homolog

    See identical proteins and their annotated locations for NP_919261.2

    Status: VALIDATED

    Source sequence(s)
    AF086471, AF452716, AK096760, AL834393, BC036844, BC056261, BX538046, BX641102, BX647798, BX648114, BX648478
    Consensus CDS
    CCDS31441.1
    UniProtKB/Swiss-Prot
    Q68D10
    Related
    ENSP00000337991.5, ENST00000336349.6
    Conserved Domains (1) summary
    pfam08243
    Location:604667
    SPT2; SPT2 chromatin protein

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109.20190905

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000011.10 Reference GRCh38.p13 Primary Assembly

    Range
    18606401..18634823 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011519919.2XP_011518221.1  protein SPT2 homolog isoform X1

    Conserved Domains (1) summary
    smart00784
    Location:495583
    SPT2; SPT2 chromatin protein
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