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

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: human all
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Genomic context

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_000075.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

RNA binding protein SYNCRIP maintains proteostasis and self-renewal of hematopoietic stem and progenitor cells.
Title: RNA binding protein SYNCRIP maintains proteostasis and self-renewal of hematopoietic stem and progenitor cells.
SYNCRIP Modulates the Epithelial-Mesenchymal Transition in Hepatocytes and HCC Cells.
Title: SYNCRIP Modulates the Epithelial-Mesenchymal Transition in Hepatocytes and HCC Cells.
hnRNP Q and hnRNP A1 Regulate the Translation of Cofilin in Response to Transient Oxygen-Glucose Deprivation in Hippocampal Neurons.
Title: hnRNP Q and hnRNP A1 Regulate the Translation of Cofilin in Response to Transient Oxygen-Glucose Deprivation in Hippocampal Neurons.
these results provide new insights into how neuronal HNRNP Q decreases VRK2 mRNA stability and contributes to the prevention of Huntington's disease
Title: HNRNP Q suppresses polyglutamine huntingtin aggregation by post-transcriptional regulation of vaccinia-related kinase 2.
results suggest that hnRNP Q plays a pivotal role in both Bmal1 translation and BMAL1-regulated gene expression.
Title: The RNA-binding protein hnRNP Q represses translation of the clock gene Bmal1 in murine cells.
Semaphorin 3A (Sema3A)-induced axonal growth cone collapse is due to upregulation of hnRNP Q and subsequent IRES-mediated expression of FMRP.
Title: hnRNP Q Regulates Internal Ribosome Entry Site-Mediated fmr1 Translation in Neurons.
SYNCRIP (synaptotagmin-binding cytoplasmic RNA-interacting protein; also known as hnRNP-Q or NSAP1) is a component of the hepatocyte exosomal miRNA sorting machinery.
Title: The RNA-Binding Protein SYNCRIP Is a Component of the Hepatocyte Exosomal Machinery Controlling MicroRNA Sorting.
SYNCRIP is required to maintain myeloid leukemia survival.
Title: Functional screen of MSI2 interactors identifies an essential role for SYNCRIP in myeloid leukemia stem cells.
hnRNP Q binds to mCry1 mRNA via the 5'UTR. Furthermore, hnRNP Q inhibits the translation of mCry1 mRNA, leading to altered rhythmicity in the mCRY1 protein profile.
Title: HnRNP Q Has a Suppressive Role in the Translation of Mouse Cryptochrome1.
hnRNP-Q1-mediated repression of Gap-43 mRNA translation provides an additional mechanism for regulating GAP-43 expression and function and may be critical for neuronal development.
Title: hnRNP-Q1 represses nascent axon growth in cortical neurons by inhibiting Gap-43 mRNA translation.

Submit: New GeneRIF Correction See all GeneRIFs (18)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (2)
Targeted (3)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH78135 (e-PCR)
- UniSTS:3370

Syncrip (e-PCR), detects polymorphism
- UniSTS:479287

Syncrip (e-PCR), detects polymorphism
- UniSTS:479043

RH126833 (e-PCR)
- UniSTS:167608

NoName (e-PCR)
- UniSTS:236218

fj44g04.x1 (e-PCR)
- UniSTS:199371

RH16146 (e-PCR)
- UniSTS:77811

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

Process	Evidence Code	Pubs
involved_in CRD-mediated mRNA stabilization	IBA Inferred from Biological aspect of Ancestor more info
involved_in CRD-mediated mRNA stabilization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within RNA splicing	IEA Inferred from Electronic Annotation more info
involved_in cellular response to type II interferon	ISO Inferred from Sequence Orthology more info
involved_in mRNA modification	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within mRNA processing	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of mRNA modification	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of translation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA demethylation	NAS Non-traceable Author Statement more info	PubMed
involved_in positive regulation of cytoplasmic translation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of translation	ISO Inferred from Sequence Orthology more info

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

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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)

NM_001284328.1 → NP_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:103 → 553

hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family

cd21066
Location:23 → 107

NURR_hnRNPQ; NURR (N-terminal unit for RNA recognition) domain found in heterogeneous nuclear ribonucleoprotein Q (hnRNPQ) and similar proteins
NM_001311113.1 → NP_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:5 → 459

hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
NM_019666.2 → NP_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:103 → 615

hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family

pfam18360
Location:34 → 103

hnRNP_Q_AcD; Heterogeneous nuclear ribonucleoprotein Q acidic domain
NM_019796.5 → NP_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:103 → 557

hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family

cd21066
Location:23 → 107

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

NC_000075.7 Reference GRCm39 C57BL/6J

Range

88331417..88364645 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

UniProtKB/TrEMBL

G3V018

Conserved Domains (2) summary

TIGR01648
Location:103 → 592

hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family

pfam18360
Location:34 → 103

hnRNP_Q_AcD; Heterogeneous nuclear ribonucleoprotein Q acidic domain
XM_006511294.3 → XP_006511357.1 heterogeneous nuclear ribonucleoprotein Q isoform X2

UniProtKB/TrEMBL

G3V018

Conserved Domains (1) summary

TIGR01648
Location:5 → 517

hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family