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SFT2D1 SFT2 domain containing 1 [ Homo sapiens (human) ]

Gene ID: 113402, updated on 24-Nov-2020

Summary

Official Symbol
SFT2D1provided by HGNC
Official Full Name
SFT2 domain containing 1provided by HGNC
Primary source
HGNC:HGNC:21102
See related
Ensembl:ENSG00000198818
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
pRGR1; C6orf83
Expression
Ubiquitous expression in prostate (RPKM 27.1), colon (RPKM 26.8) and 25 other tissues See more
Orthologs

Genomic context

See SFT2D1 in Genome Data Viewer
Location:
6q27
Exon count:
9
Annotation release Status Assembly Chr Location
109.20201120 current GRCh38.p13 (GCF_000001405.39) 6 NC_000006.12 (166319728..166342545, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (166733516..166755991, complement)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105378118 Neighboring gene uncharacterized LOC107986669 Neighboring gene proline rich 18 Neighboring gene heterogeneous nuclear ribonucleoprotein A1 pseudogene 49 Neighboring gene uncharacterized LOC100289495 Neighboring gene mitochondrial pyruvate carrier 1

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

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of SFT2 domain containing 1 (SFT2D1) by siRNA inhibits HIV-1 replication in HeLa-derived TZM-bl cells PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ11427, FLJ33476, MGC19825, DKFZp667D087

Gene Ontology Provided by GOA

Function Evidence Code Pubs
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
protein transport IEA
Inferred from Electronic Annotation
more info
 
vesicle-mediated transport IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
vesicle transport protein SFT2A
Names
SFT2 domain-containing protein 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_145169.3NP_660152.1  vesicle transport protein SFT2A

    See identical proteins and their annotated locations for NP_660152.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the protein.
    Source sequence(s)
    AL833217, BC018969, DB476616
    Consensus CDS
    CCDS5292.1
    UniProtKB/Swiss-Prot
    Q8WV19
    Related
    ENSP00000354590.3, ENST00000361731.4
    Conserved Domains (1) summary
    pfam04178
    Location:38155
    Got1; Got1/Sft2-like family

RNA

  1. NR_130112.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) contains an alternate internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AL833217, BG706927, BI597156, DB476616
  2. NR_130113.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) contains an alternate internal exon and lacks two exons, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AL833217, AW964442, BI597156, DB476616
  3. NR_130114.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) contains an alternate internal exon and lacks two exons, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AL833217, BF223532, BI597156, DB476616

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20201120

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000006.12 Reference GRCh38.p13 Primary Assembly

    Range
    166319728..166342545 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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