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

Gene ID: 10492, updated on 8-May-2016
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 HPRD:06734; MIM:616686; Vega:OTTHUMG00000015141
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]
Orthologs
Location:
6q14-q15
Exon count:
13
Annotation release Status Assembly Chr Location
107 current GRCh38.p2 (GCF_000001405.28) 6 NC_000006.12 (85607784..85643850, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (86317502..86353568, complement)

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

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

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

Products Interactant Other Gene Complex Source Pubs Description

Markers

Homology

Clone Names

  • FLJ31626

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA binding TAS
Traceable Author Statement
more info
PubMed 
mRNA 3'-UTR binding IEA
Inferred from Electronic Annotation
more info
 
mRNA 5'-UTR binding IEA
Inferred from Electronic Annotation
more info
 
nucleotide binding IEA
Inferred from Electronic Annotation
more info
 
poly(A) RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
poly(A) binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
CRD-mediated mRNA stabilization IMP
Inferred from Mutant Phenotype
more info
PubMed 
RNA processing TAS
Traceable Author Statement
more info
PubMed 
RNA splicing TAS
Traceable Author Statement
more info
PubMed 
cellular response to interferon-gamma IDA
Inferred from Direct Assay
more info
PubMed 
circadian rhythm IEA
Inferred from Electronic Annotation
more info
 
mRNA splicing, via spliceosome IC
Inferred by Curator
more info
PubMed 
negative regulation of mRNA modification IEA
Inferred from Electronic Annotation
more info
 
negative regulation of translation IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of translation IMP
Inferred from Mutant Phenotype
more info
PubMed 
osteoblast differentiation IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of translation IEA
Inferred from Electronic Annotation
more info
 
viral process IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
CRD-mediated mRNA stability complex IDA
Inferred from Direct Assay
more info
PubMed 
GAIT complex IDA
Inferred from Direct Assay
more info
PubMed 
catalytic step 2 spliceosome IDA
Inferred from Direct Assay
more info
PubMed 
endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
 
histone pre-mRNA 3'end processing complex ISS
Inferred from Sequence or Structural Similarity
more info
 
intracellular ribonucleoprotein complex IDA
Inferred from Direct Assay
more info
PubMed 
membrane IDA
Inferred from Direct Assay
more info
PubMed 
neuronal cell body IEA
Inferred from Electronic Annotation
more info
 
nucleoplasm IEA
Inferred from Electronic Annotation
more info
 
nucleus TAS
Traceable Author Statement
more info
PubMed 
proximal dendrite IEA
Inferred from Electronic Annotation
more info
 
Preferred Names
heterogeneous nuclear ribonucleoprotein Q
Names
NS1-associated protein 1
glycine- and tyrosine-rich RNA-binding protein
synaptotagmin binding, cytoplasmic RNA interacting protein

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
    5001..40542
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001159673.1NP_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, ENST00000616122
    Conserved Domains (5) summary
    smart00360
    Location:66138
    RRM; RNA recognition motif
    cd12483
    Location:63141
    RRM1_hnRNPQ; RNA recognition motif 1 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)
    cd12489
    Location:143227
    RRM2_hnRNPQ; RNA recognition motif 2 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)
    cd12495
    Location:239310
    RRM3_hnRNPQ; RNA recognition motif 3 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)
    cl17173
    Location:412455
    AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...
  2. NM_001159674.1NP_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 (5) summary
    smart00360
    Location:164236
    RRM; RNA recognition motif
    cd12483
    Location:161239
    RRM1_hnRNPQ; RNA recognition motif 1 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)
    cd12495
    Location:302373
    RRM3_hnRNPQ; RNA recognition motif 3 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)
    cl17169
    Location:241303
    RRM_SF; RNA recognition motif (RRM) superfamily
    cl17173
    Location:475518
    AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...
  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
    Conserved Domains (4) summary
    cd12483
    Location:161239
    RRM1_hnRNPQ; RNA recognition motif 1 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)
    cd12495
    Location:302373
    RRM3_hnRNPQ; RNA recognition motif 3 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)
    TIGR01648
    Location:103580
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
    cl17169
    Location:241303
    RRM_SF; RNA recognition motif (RRM) superfamily
  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 (5) summary
    smart00360
    Location:164236
    RRM; RNA recognition motif
    cd12483
    Location:161239
    RRM1_hnRNPQ; RNA recognition motif 1 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)
    cd12489
    Location:241325
    RRM2_hnRNPQ; RNA recognition motif 2 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)
    cd12495
    Location:337408
    RRM3_hnRNPQ; RNA recognition motif 3 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)
    cl17173
    Location:510552
    AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...
  5. NM_001159677.1NP_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, AF037448, AF155568, AL136082, BF221524, DA845413
    Consensus CDS
    CCDS55041.1
    UniProtKB/Swiss-Prot
    O60506
    UniProtKB/TrEMBL
    Q59GL1
    Related
    ENSP00000347380, OTTHUMP00000016816, ENST00000355238, OTTHUMT00000041397
    Conserved Domains (5) summary
    smart00360
    Location:164236
    RRM; RNA recognition motif
    cd12483
    Location:161239
    RRM1_hnRNPQ; RNA recognition motif 1 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)
    cd12489
    Location:241325
    RRM2_hnRNPQ; RNA recognition motif 2 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)
    cd12495
    Location:337408
    RRM3_hnRNPQ; RNA recognition motif 3 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)
    cl17173
    Location:510553
    AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...
  6. NM_001253771.1NP_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 (5) summary
    smart00360
    Location:1284
    RRM; RNA recognition motif
    cd12489
    Location:89173
    RRM2_hnRNPQ; RNA recognition motif 2 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)
    cd12495
    Location:185256
    RRM3_hnRNPQ; RNA recognition motif 3 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)
    cl17169
    Location:1187
    RRM_SF; RNA recognition motif (RRM) superfamily
    cl17173
    Location:358401
    AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...
  7. NM_006372.4NP_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, DA845413, DB160837
    Consensus CDS
    CCDS5005.1
    UniProtKB/Swiss-Prot
    O60506
    Related
    ENSP00000358635, OTTHUMP00000016815, ENST00000369622, OTTHUMT00000041396
    Conserved Domains (4) summary
    cd12483
    Location:161239
    RRM1_hnRNPQ; RNA recognition motif 1 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)
    cd12489
    Location:241325
    RRM2_hnRNPQ; RNA recognition motif 2 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)
    cd12495
    Location:337408
    RRM3_hnRNPQ; RNA recognition motif 3 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)
    TIGR01648
    Location:103615
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 107 details...

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

Reference GRCh38.p2 Primary Assembly

Genomic

  1. NC_000006.12 Reference GRCh38.p2 Primary Assembly

    Range
    85607784..85643850 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005248635.3XP_005248692.1  

    See identical proteins and their annotated locations for XP_005248692.1

    Conserved Domains (5) summary
    smart00360
    Location:164236
    RRM; RNA recognition motif
    cd12483
    Location:161239
    RRM1_hnRNPQ; RNA recognition motif 1 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)
    cd12489
    Location:241325
    RRM2_hnRNPQ; RNA recognition motif 2 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)
    cd12495
    Location:337408
    RRM3_hnRNPQ; RNA recognition motif 3 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)
    cl17173
    Location:510552
    AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...
  2. XM_005248637.1XP_005248694.1  

    See identical proteins and their annotated locations for XP_005248694.1

    UniProtKB/Swiss-Prot
    O60506
    Conserved Domains (4) summary
    cd12483
    Location:161239
    RRM1_hnRNPQ; RNA recognition motif 1 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)
    cd12489
    Location:241325
    RRM2_hnRNPQ; RNA recognition motif 2 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)
    cd12495
    Location:337408
    RRM3_hnRNPQ; RNA recognition motif 3 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)
    TIGR01648
    Location:103615
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
  3. XM_005248636.1XP_005248693.1  

    See identical proteins and their annotated locations for XP_005248693.1

    Conserved Domains (4) summary
    cd12483
    Location:63141
    RRM1_hnRNPQ; RNA recognition motif 1 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)
    cd12489
    Location:143227
    RRM2_hnRNPQ; RNA recognition motif 2 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)
    cd12495
    Location:239310
    RRM3_hnRNPQ; RNA recognition motif 3 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)
    TIGR01648
    Location:5517
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family

Alternate CHM1_1.1

Genomic

  1. NC_018917.2 Alternate CHM1_1.1

    Range
    86415395..86450935 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)