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SH3TC1 SH3 domain and tetratricopeptide repeats 1 [ Homo sapiens (human) ]

Gene ID: 54436, updated on 1-Jun-2020

Summary

Official Symbol
SH3TC1provided by HGNC
Official Full Name
SH3 domain and tetratricopeptide repeats 1provided by HGNC
Primary source
HGNC:HGNC:26009
See related
Ensembl:ENSG00000125089
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
Expression
Broad expression in spleen (RPKM 7.5), kidney (RPKM 5.6) and 25 other tissues See more
Orthologs

Genomic context

See SH3TC1 in Genome Data Viewer
Location:
4p16.1
Exon count:
22
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 4 NC_000004.12 (8182072..8241103)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (8201060..8242830)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene actin binding LIM protein family member 2 Neighboring gene microRNA 95 Neighboring gene guanine monophosphate synthase pseudogene 1 Neighboring gene uncharacterized LOC105374373 Neighboring gene uncharacterized LOC112268463 Neighboring gene HtrA serine peptidase 3

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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ20356, FLJ32999, FLJ36243, FLJ46394

Gene Ontology Provided by GOA

Process Evidence Code Pubs
biological_process ND
No biological Data available
more info
 
Component Evidence Code Pubs
cellular_component ND
No biological Data available
more info
 

General protein information

Preferred Names
SH3 domain and tetratricopeptide repeat-containing protein 1
Names
SH3 domain and tetratricopeptide repeats-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_001318480.2NP_001305409.2  SH3 domain and tetratricopeptide repeat-containing protein 1 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in its 5' UTR compared to variant 1. This variant represents translation initiation at a downstream start codon compared to variant 1; the 5'-most initiation codon, as used in variant 1, is associated with a truncated ORF that would render the transcript a candidate for nonsense-mediated decay (NMD). Leaky scanning may allow translation initiation at the downstream start codon to encode an isoform (2) that has a shorter N-terminus, compared to isoform 1.
    Source sequence(s)
    AC104650, KF459594
  2. NM_018986.5NP_061859.4  SH3 domain and tetratricopeptide repeat-containing protein 1 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    AC104650, KF459594
    Consensus CDS
    CCDS3399.1
    Related
    ENSP00000245105.3, ENST00000245105.8
    Conserved Domains (3) summary
    cd11885
    Location:309363
    SH3_SH3TC; Src Homology 3 domain of SH3 domain and tetratricopeptide repeat-containing (SH3TC) proteins and similar domains
    sd00006
    Location:11531180
    TPR; TPR repeat [structural motif]
    pfam13424
    Location:11561224
    TPR_12; Tetratricopeptide repeat

RNA

  1. NR_134639.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks two alternate internal exons, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC104650, KF459594
    Related
    ENST00000502669.5

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000004.12 Reference GRCh38.p13 Primary Assembly

    Range
    8182072..8241103
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011513488.1XP_011511790.1  SH3 domain and tetratricopeptide repeat-containing protein 1 isoform X2

    See identical proteins and their annotated locations for XP_011511790.1

    UniProtKB/Swiss-Prot
    Q8TE82
    Conserved Domains (3) summary
    cd11885
    Location:309363
    SH3_SH3TC; Src Homology 3 domain of SH3 domain and tetratricopeptide repeat-containing (SH3TC) proteins and similar domains
    sd00006
    Location:11531180
    TPR; TPR repeat [structural motif]
    pfam13424
    Location:11561224
    TPR_12; Tetratricopeptide repeat
  2. XM_017008300.2XP_016863789.1  SH3 domain and tetratricopeptide repeat-containing protein 1 isoform X2

    UniProtKB/Swiss-Prot
    Q8TE82
    Conserved Domains (3) summary
    cd11885
    Location:309363
    SH3_SH3TC; Src Homology 3 domain of SH3 domain and tetratricopeptide repeat-containing (SH3TC) proteins and similar domains
    sd00006
    Location:11531180
    TPR; TPR repeat [structural motif]
    pfam13424
    Location:11561224
    TPR_12; Tetratricopeptide repeat
  3. XM_011513489.2XP_011511791.1  SH3 domain and tetratricopeptide repeat-containing protein 1 isoform X7

    See identical proteins and their annotated locations for XP_011511791.1

    Conserved Domains (3) summary
    cd11885
    Location:1670
    SH3_SH3TC; Src Homology 3 domain of SH3 domain and tetratricopeptide repeat-containing (SH3TC) proteins and similar domains
    sd00006
    Location:860887
    TPR; TPR repeat [structural motif]
    pfam13424
    Location:859931
    TPR_12; Tetratricopeptide repeat
  4. XM_024454094.1XP_024309862.1  SH3 domain and tetratricopeptide repeat-containing protein 1 isoform X1

    Conserved Domains (3) summary
    sd00006
    Location:10501077
    TPR; TPR repeat [structural motif]
    pfam13424
    Location:10531121
    TPR_12; Tetratricopeptide repeat
    cl17036
    Location:233269
    SH3; Src Homology 3 domain superfamily
  5. XM_024454095.1XP_024309863.1  SH3 domain and tetratricopeptide repeat-containing protein 1 isoform X3

    Conserved Domains (1) summary
    cd11885
    Location:233287
    SH3_SH3TC; Src Homology 3 domain of SH3 domain and tetratricopeptide repeat-containing (SH3TC) proteins and similar domains
  6. XM_024454096.1XP_024309864.1  SH3 domain and tetratricopeptide repeat-containing protein 1 isoform X4

    Conserved Domains (1) summary
    cd11885
    Location:233287
    SH3_SH3TC; Src Homology 3 domain of SH3 domain and tetratricopeptide repeat-containing (SH3TC) proteins and similar domains
  7. XM_024454097.1XP_024309865.1  SH3 domain and tetratricopeptide repeat-containing protein 1 isoform X6

    Conserved Domains (1) summary
    cd11885
    Location:233287
    SH3_SH3TC; Src Homology 3 domain of SH3 domain and tetratricopeptide repeat-containing (SH3TC) proteins and similar domains
  8. XM_017008302.1XP_016863791.1  SH3 domain and tetratricopeptide repeat-containing protein 1 isoform X8

  9. XM_006713889.2XP_006713952.1  SH3 domain and tetratricopeptide repeat-containing protein 1 isoform X5

    Conserved Domains (3) summary
    cd11885
    Location:138192
    SH3_SH3TC; Src Homology 3 domain of SH3 domain and tetratricopeptide repeat-containing (SH3TC) proteins and similar domains
    sd00006
    Location:9821009
    TPR; TPR repeat [structural motif]
    pfam13424
    Location:9811051
    TPR_12; Tetratricopeptide repeat
  10. XM_006713891.3XP_006713954.1  SH3 domain and tetratricopeptide repeat-containing protein 1 isoform X7

    See identical proteins and their annotated locations for XP_006713954.1

    Conserved Domains (3) summary
    cd11885
    Location:1670
    SH3_SH3TC; Src Homology 3 domain of SH3 domain and tetratricopeptide repeat-containing (SH3TC) proteins and similar domains
    sd00006
    Location:860887
    TPR; TPR repeat [structural motif]
    pfam13424
    Location:859931
    TPR_12; Tetratricopeptide repeat

RNA

  1. XR_002959735.1 RNA Sequence

    Related
    ENST00000515682.5
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