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Syncrip synaptotagmin binding, cytoplasmic RNA interacting protein [ Mus musculus (house mouse) ]

Gene ID: 56403, updated on 1-Mar-2024

Summary

Official Symbol
Syncripprovided by MGI
Official Full Name
synaptotagmin binding, cytoplasmic RNA interacting proteinprovided by MGI
Primary source
MGI:MGI:1891690
See related
Ensembl:ENSMUSG00000032423 AllianceGenome:MGI:1891690
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
pp68; Nsap1; Nsap1l; GRY-RBP; hnRNP Q; 2610109K23Rik; 4632417O19Rik
Summary
Enables poly(A) binding activity. Predicted to be involved in cellular response to interferon-gamma; negative regulation of mRNA modification; and posttranscriptional regulation of gene expression. Predicted to act upstream of or within RNA splicing and mRNA processing. Located in cytoplasm. Part of histone pre-mRNA 3'end processing complex. Is expressed in several structures, including alimentary system; central nervous system; genitourinary system; respiratory system; and sensory organ. Orthologous to human SYNCRIP (synaptotagmin binding cytoplasmic RNA interacting protein). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in CNS E11.5 (RPKM 10.8), limb E14.5 (RPKM 9.0) and 21 other tissues See more
Orthologs
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Genomic context

See Syncrip in Genome Data Viewer
Location:
9 E3.1; 9 47.24 cM
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (88331417..88364645, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (88449364..88482591, complement)

Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_24855 Neighboring gene 5' nucleotidase, ecto Neighboring gene sorting nexin 14 Neighboring gene 60S ribosomal protein L21 pseudogene Neighboring gene STARR-positive B cell enhancer ABC_E10573 Neighboring gene STARR-seq mESC enhancer starr_24856 Neighboring gene STARR-positive B cell enhancer ABC_E9772 Neighboring gene small nucleolar RNA, C/D box 50A Neighboring gene small nucleolar RNA, C/D box 50B Neighboring gene small nucleolar RNA host gene 5

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (3) 
  • Endonuclease-mediated (2) 

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables RNA binding IEA
Inferred from Electronic Annotation
more info
 
enables mRNA 3'-UTR binding ISO
Inferred from Sequence Orthology
more info
 
enables mRNA 5'-UTR binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables mRNA 5'-UTR binding ISO
Inferred from Sequence Orthology
more info
 
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
 
enables poly(A) binding IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
part_of CRD-mediated mRNA stability complex IBA
Inferred from Biological aspect of Ancestor
more info
 
part_of CRD-mediated mRNA stability complex ISO
Inferred from Sequence Orthology
more info
 
part_of GAIT complex ISO
Inferred from Sequence Orthology
more info
 
part_of catalytic step 2 spliceosome ISO
Inferred from Sequence Orthology
more info
 
located_in cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytosol ISO
Inferred from Sequence Orthology
more info
 
located_in endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
 
part_of histone pre-mRNA 3'end processing complex IDA
Inferred from Direct Assay
more info
PubMed 
located_in intracellular membrane-bounded organelle IEA
Inferred from Electronic Annotation
more info
 
part_of mCRD-mediated mRNA stability complex ISO
Inferred from Sequence Orthology
more info
 
part_of mRNA editing complex NAS
Non-traceable Author Statement
more info
PubMed 
located_in neuronal cell body ISO
Inferred from Sequence Orthology
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 
located_in proximal dendrite ISO
Inferred from Sequence Orthology
more info
 
part_of ribonucleoprotein complex IBA
Inferred from Biological aspect of Ancestor
more info
 
part_of ribonucleoprotein complex ISO
Inferred from Sequence Orthology
more info
 
part_of spliceosomal complex IEA
Inferred from Electronic Annotation
more info
 

General protein information

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

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.

mRNA and Protein(s)

  1. NM_001284328.1NP_001271257.1  heterogeneous nuclear ribonucleoprotein Q isoform 3

    See identical proteins and their annotated locations for NP_001271257.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses a distinct 3' terminal exon and differs in the 3' coding region and 3' UTR, compared to variant 1. The resulting protein (isoform 3) is shorter and has a distinct C-terminus compared to isoform 1.
    Source sequence(s)
    BC080309, CT025673
    Consensus CDS
    CCDS72292.1
    UniProtKB/TrEMBL
    A0A0R4J259, G3UZI2
    Related
    ENSMUSP00000134071.2, ENSMUST00000174282.8
    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
  2. NM_001311113.1NP_001298042.1  heterogeneous nuclear ribonucleoprotein Q isoform 4

    See identical proteins and their annotated locations for NP_001298042.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' and 3' UTRs and has multiple coding region differences compared to variant 1. The resulting isoform (4) has a shorter N-terminus, a distinct C-terminus, and is shorter than isoform 1.
    Source sequence(s)
    AK034845, AK078158, AK083398, BC050079, BY234240, CT025673
    Consensus CDS
    CCDS81048.1
    UniProtKB/TrEMBL
    G3UZ48, G3UZI2
    Related
    ENSMUSP00000134342.2, ENSMUST00000174391.8
    Conserved Domains (1) summary
    TIGR01648
    Location:5459
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
  3. NM_019666.2NP_062640.2  heterogeneous nuclear ribonucleoprotein Q isoform 1

    See identical proteins and their annotated locations for NP_062640.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest protein (isoform 1).
    Source sequence(s)
    AK162448, BQ559204, BU505018, CN529994, CV562339
    Consensus CDS
    CCDS57686.1
    UniProtKB/Swiss-Prot
    O88991, Q2YDV8, Q68ED6, Q7TMK9, Q80YV6, Q8BGP1, Q8C5K6, Q8CGC2, Q91ZR0, Q99KU9, Q9QYF4
    UniProtKB/TrEMBL
    G3V018
    Related
    ENSMUSP00000133649.2, ENSMUST00000173801.8
    Conserved Domains (2) summary
    TIGR01648
    Location:103615
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
    pfam18360
    Location:34103
    hnRNP_Q_AcD; Heterogeneous nuclear ribonucleoprotein Q acidic domain
  4. NM_019796.5NP_062770.1  heterogeneous nuclear ribonucleoprotein Q isoform 2

    See identical proteins and their annotated locations for NP_062770.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses a distinct 3' terminal exon and differs in the 3' coding region and 3' UTR, compared to variant 1. The resulting protein (isoform 2) is shorter and has a distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AK034845, CT025673
    Consensus CDS
    CCDS23388.1
    UniProtKB/TrEMBL
    G3UZI2
    Related
    ENSMUSP00000063744.6, ENSMUST00000069221.12
    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

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000075.7 Reference GRCm39 C57BL/6J

    Range
    88331417..88364645 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006511293.5XP_006511356.1  heterogeneous nuclear ribonucleoprotein Q isoform X1

    UniProtKB/TrEMBL
    G3V018
    Conserved Domains (2) summary
    TIGR01648
    Location:103592
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
    pfam18360
    Location:34103
    hnRNP_Q_AcD; Heterogeneous nuclear ribonucleoprotein Q acidic domain
  2. XM_006511294.3XP_006511357.1  heterogeneous nuclear ribonucleoprotein Q isoform X2

    UniProtKB/TrEMBL
    G3V018
    Conserved Domains (1) summary
    TIGR01648
    Location:5517
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family