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SYNCRIP synaptotagmin binding cytoplasmic RNA interacting protein [ Homo sapiens (human) ]

Gene ID: 10492, updated on 5-Sep-2021

Summary

Official Symbol
SYNCRIPprovided by HGNC
Official Full Name
synaptotagmin binding cytoplasmic RNA interacting proteinprovided by HGNC
Primary source
HGNC:HGNC:16918
See related
Ensembl:ENSG00000135316 MIM:616686
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
PP68; NSAP1; GRYRBP; HNRNPQ; HNRPQ1; GRY-RBP; hnRNP-Q
Summary
This gene encodes a member of the cellular heterogeneous nuclear ribonucleoprotein (hnRNP) family. hnRNPs are RNA binding proteins that complex with heterogeneous nuclear RNA (hnRNA) and regulate alternative splicing, polyadenylation, and other aspects of mRNA metabolism and transport. The encoded protein plays a role in multiple aspects of mRNA maturation and is associated with several multiprotein complexes including the apoB RNA editing-complex and survival of motor neurons (SMN) complex. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene, and a pseudogene of this gene is located on the short arm of chromosome 20. [provided by RefSeq, Dec 2011]
Expression
Ubiquitous expression in thyroid (RPKM 21.7), appendix (RPKM 18.1) and 25 other tissues See more
Orthologs
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Genomic context

See SYNCRIP in Genome Data Viewer
Location:
6q14.3
Exon count:
13
Annotation release Status Assembly Chr Location
109.20210514 current GRCh38.p13 (GCF_000001405.39) 6 NC_000006.12 (85607784..85643862, complement)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (86317502..86352604, complement)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene 5'-nucleotidase ecto Neighboring gene sorting nexin 14 Neighboring gene Sharpr-MPRA regulatory region 13581 Neighboring gene pyruvate kinase M1/2 pseudogene 3 Neighboring gene small nucleolar RNA, C/D box 50A Neighboring gene small nucleolar RNA host gene 5

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?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env Tandem affinity purification and mass spectrometry analysis identify heterogeneous nuclear ribonucleoprotein Q (HNRNPQ; SYNCRIP), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Gag-Pol gag-pol Tandem affinity purification and mass spectrometry analysis identify heterogeneous nuclear ribonucleoprotein Q (HNRNPQ; SYNCRIP), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Nef nef Tandem affinity purification and mass spectrometry analysis identify heterogeneous nuclear ribonucleoprotein Q (HNRNPQ; SYNCRIP), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Pr55(Gag) gag hnRNP Q overexpression in HIV-1 infected HeLa cells increases levels of the HIV-1 Gag-p24 protein, while levels of viral Rev-dependent mRNAs are not affected PubMed
gag Tandem affinity purification and mass spectrometry analysis identify heterogeneous nuclear ribonucleoprotein Q (HNRNPQ; SYNCRIP), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Rev rev hnRNP Q overexpression increases levels of reporter proteins in a Rev-dependent manner PubMed
rev HIV-1 Rev interacting protein, synaptotagmin binding, cytoplasmic RNA interacting protein, is identified by the in-vitro binding experiments involving cytosolic or nuclear extracts from HeLa cells. The interaction of Rev with SYNCRIP is increased by RRE PubMed
rev HIV-1 Rev involves its amino acids 9-14 for specific binding to the heterogeneous nuclear ribonucleoproteins (hnRNP) Q PubMed
capsid gag hnRNP Q overexpression in HIV-1 infected HeLa cells increases levels of the HIV-1 Gag-p24 protein, while levels of viral Rev-dependent mRNAs are not affected 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

  • FLJ31626

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables RNA binding HDA PubMed 
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables mRNA 5'-UTR binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables mRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Component Evidence Code Pubs
part_of CRD-mediated mRNA stability complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of CRD-mediated mRNA stability complex IDA
Inferred from Direct Assay
more info
PubMed 
part_of GAIT complex IDA
Inferred from Direct Assay
more info
PubMed 
part_of catalytic step 2 spliceosome IDA
Inferred from Direct Assay
more info
PubMed 
located_in endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
 
part_of histone pre-mRNA 3'end processing complex ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in membrane HDA PubMed 
located_in nucleoplasm IEA
Inferred from Electronic Annotation
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of ribonucleoprotein complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of ribonucleoprotein complex IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
heterogeneous nuclear ribonucleoprotein Q
Names
NS1-associated protein 1
glycine- and tyrosine-rich RNA-binding protein

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.

Genomic

  1. NG_031848.1 RefSeqGene

    Range
    5440..40542
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001159673.2NP_001153145.1  heterogeneous nuclear ribonucleoprotein Q isoform 2

    See identical proteins and their annotated locations for NP_001153145.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR, 3' UTR, and coding region and initiates translation at an alternate in-frame start codon, compared to variant 1. The resulting isoform (2) is shorter and has distinct N- and C-termini, compared to isoform 1.
    Source sequence(s)
    AB209098, AF037448, AL136082, BF221524
    Consensus CDS
    CCDS75491.1
    UniProtKB/Swiss-Prot
    O60506
    UniProtKB/TrEMBL
    B7Z645, Q59GL1
    Related
    ENSP00000484577.1, ENST00000616122.5
    Conserved Domains (1) summary
    TIGR01648
    Location:5459
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
  2. NM_001159674.2NP_001153146.1  heterogeneous nuclear ribonucleoprotein Q isoform 3

    See identical proteins and their annotated locations for NP_001153146.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR, 3' UTR, and coding region compared to variant 1. The resulting isoform (3) is shorter and has a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AB209098, AF037448, AL136082, BC032643, BF221524
    UniProtKB/Swiss-Prot
    O60506
    UniProtKB/TrEMBL
    Q59GL1
    Conserved Domains (2) summary
    TIGR01648
    Location:103522
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
    cd21066
    Location:23107
    NURR_hnRNPQ; NURR (N-terminal unit for RNA recognition) domain found in heterogeneous nuclear ribonucleoprotein Q (hnRNPQ) and similar proteins
  3. NM_001159675.1NP_001153147.1  heterogeneous nuclear ribonucleoprotein Q isoform 4

    See identical proteins and their annotated locations for NP_001153147.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR and coding region compared to variant 1. The resulting isoform (4) is shorter, compared to isoform 1.
    Source sequence(s)
    AL136082, AY034482, BC015575, DB160837
    UniProtKB/Swiss-Prot
    O60506
    Related
    ENSP00000504120.1, ENST00000678930.1
    Conserved Domains (2) summary
    TIGR01648
    Location:103580
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
    cd21066
    Location:23107
    NURR_hnRNPQ; NURR (N-terminal unit for RNA recognition) domain found in heterogeneous nuclear ribonucleoprotein Q (hnRNPQ) and similar proteins
  4. NM_001159676.1NP_001153148.1  heterogeneous nuclear ribonucleoprotein Q isoform 5

    See identical proteins and their annotated locations for NP_001153148.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR, 3' UTR, and coding region compared to variant 1. The resulting isoform (5) is shorter and has a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AB209098, AL136082, AY034483, BC015575, BF221524
    UniProtKB/Swiss-Prot
    O60506
    UniProtKB/TrEMBL
    Q59GL1
    Conserved Domains (2) summary
    TIGR01648
    Location:103553
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
    cd21066
    Location:23107
    NURR_hnRNPQ; NURR (N-terminal unit for RNA recognition) domain found in heterogeneous nuclear ribonucleoprotein Q (hnRNPQ) and similar proteins
  5. NM_001159677.2NP_001153149.1  heterogeneous nuclear ribonucleoprotein Q isoform 6

    See identical proteins and their annotated locations for NP_001153149.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) differs in the 3' UTR and coding region compared to variant 1. The resulting isoform (6) is shorter and has a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AB209098, AF155568, AL136082, BF221524
    Consensus CDS
    CCDS55041.1
    UniProtKB/Swiss-Prot
    O60506
    UniProtKB/TrEMBL
    Q59GL1
    Related
    ENSP00000347380.6, ENST00000355238.11
    Conserved Domains (2) summary
    TIGR01648
    Location:103557
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
    cd21066
    Location:23107
    NURR_hnRNPQ; NURR (N-terminal unit for RNA recognition) domain found in heterogeneous nuclear ribonucleoprotein Q (hnRNPQ) and similar proteins
  6. NM_001253771.2NP_001240700.1  heterogeneous nuclear ribonucleoprotein Q isoform 7

    See identical proteins and their annotated locations for NP_001240700.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (7) differs in the 3' UTR, lacks an internal exon, uses an alternate splice site in the coding region and initiates translation at an alternate start codon, compared to variant 1. The encoded isoform (7) is shorter and has distinct N- and C-termini, compared to isoform 1.
    Source sequence(s)
    AA411631, AB209098, BC040844, BF221524, CV806885
    UniProtKB/Swiss-Prot
    O60506
    UniProtKB/TrEMBL
    Q59GL1
    Conserved Domains (1) summary
    TIGR01648
    Location:11405
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
  7. NM_006372.5NP_006363.4  heterogeneous nuclear ribonucleoprotein Q isoform 1

    See identical proteins and their annotated locations for NP_006363.4

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AF037448, AL136082, DA117533, DB160837
    Consensus CDS
    CCDS5005.1
    UniProtKB/Swiss-Prot
    O60506
    Related
    ENSP00000358635.3, ENST00000369622.8
    Conserved Domains (2) summary
    TIGR01648
    Location:103615
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
    cd21066
    Location:23107
    NURR_hnRNPQ; NURR (N-terminal unit for RNA recognition) domain found in heterogeneous nuclear ribonucleoprotein Q (hnRNPQ) and similar proteins

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210514

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
    85607784..85643862 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017010178.2XP_016865667.1  heterogeneous nuclear ribonucleoprotein Q isoform X4

    UniProtKB/Swiss-Prot
    O60506
    Related
    ENSP00000503246.1, ENST00000678528.1
    Conserved Domains (2) summary
    TIGR01648
    Location:103557
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
    cd21066
    Location:23107
    NURR_hnRNPQ; NURR (N-terminal unit for RNA recognition) domain found in heterogeneous nuclear ribonucleoprotein Q (hnRNPQ) and similar proteins
  2. XM_017010179.1XP_016865668.1  heterogeneous nuclear ribonucleoprotein Q isoform X5

    Related
    ENSP00000504816.1, ENST00000677771.1
    Conserved Domains (2) summary
    TIGR01648
    Location:103553
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
    cd21066
    Location:23107
    NURR_hnRNPQ; NURR (N-terminal unit for RNA recognition) domain found in heterogeneous nuclear ribonucleoprotein Q (hnRNPQ) and similar proteins
  3. XM_005248635.4XP_005248692.1  heterogeneous nuclear ribonucleoprotein Q isoform X5

    See identical proteins and their annotated locations for XP_005248692.1

    Related
    ENSP00000504086.1, ENST00000678878.1
    Conserved Domains (2) summary
    TIGR01648
    Location:103553
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
    cd21066
    Location:23107
    NURR_hnRNPQ; NURR (N-terminal unit for RNA recognition) domain found in heterogeneous nuclear ribonucleoprotein Q (hnRNPQ) and similar proteins
  4. XM_017010177.1XP_016865666.1  heterogeneous nuclear ribonucleoprotein Q isoform X2

    Conserved Domains (2) summary
    TIGR01648
    Location:103592
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
    cd21066
    Location:23107
    NURR_hnRNPQ; NURR (N-terminal unit for RNA recognition) domain found in heterogeneous nuclear ribonucleoprotein Q (hnRNPQ) and similar proteins
  5. XM_017010176.1XP_016865665.1  heterogeneous nuclear ribonucleoprotein Q isoform X1

    Conserved Domains (2) summary
    TIGR01648
    Location:103592
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
    cd21066
    Location:23107
    NURR_hnRNPQ; NURR (N-terminal unit for RNA recognition) domain found in heterogeneous nuclear ribonucleoprotein Q (hnRNPQ) and similar proteins
  6. XM_005248637.2XP_005248694.1  heterogeneous nuclear ribonucleoprotein Q isoform X3

    See identical proteins and their annotated locations for XP_005248694.1

    UniProtKB/Swiss-Prot
    O60506
    Related
    ENSP00000504706.1, ENST00000676688.1
    Conserved Domains (2) summary
    TIGR01648
    Location:103615
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
    cd21066
    Location:23107
    NURR_hnRNPQ; NURR (N-terminal unit for RNA recognition) domain found in heterogeneous nuclear ribonucleoprotein Q (hnRNPQ) and similar proteins
  7. XM_005248636.3XP_005248693.1  heterogeneous nuclear ribonucleoprotein Q isoform X6

    See identical proteins and their annotated locations for XP_005248693.1

    Related
    ENSP00000503183.1, ENST00000678899.1
    Conserved Domains (1) summary
    TIGR01648
    Location:5517
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
  8. XM_017010180.2XP_016865669.1  heterogeneous nuclear ribonucleoprotein Q isoform X7

    Conserved Domains (1) summary
    TIGR01648
    Location:5455
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
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