Syncrip synaptotagmin binding, cytoplasmic RNA interacting protein [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Syncripprovided by RGD
Full Name: synaptotagmin binding, cytoplasmic RNA interacting proteinprovided by RGD
Primary source: RGD:1305683
See related: Ensembl:ENSRNOG00000000204 AllianceGenome:RGD:1305683
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Ab2-339; hnRNP Q
Summary: Enables mRNA 3'-UTR binding activity and mRNA 5'-UTR binding activity. Involved in circadian rhythm; negative regulation of mRNA modification; and positive regulation of translation. Located in several cellular components, including neuronal cell body; nucleus; and proximal dendrite. Orthologous to human SYNCRIP (synaptotagmin binding cytoplasmic RNA interacting protein). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 303.0), Spleen (RPKM 256.9) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 8q31

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	8	NC_086026.1 (98282358..98315412, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	8	NC_051343.1 (89402487..89435517, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	8	NC_005107.4 (96100692..96266342, complement)

Chromosome 8 - NC_086026.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Both SYNCRIP (and SYT7) were expressed and partially co-localized in somata of Purkinje neurons in the cerebellar cortex.
Title: Synaptotagmin 7 and SYNCRIP proteins are ubiquitously expressed in the rat brain and co-localize in Purkinje neurons.
Data indicate that atg7, RhoA and hnRNP-Q1 are involved in autophagy negatively regulates early axon growth in cortical neurons.
Title: Autophagy negatively regulates early axon growth in cortical neurons.
hnRNP Q1 may participate in localization of mRNAs encoding Cdc42 signaling factors in neurites, and thereby may regulate actin dynamics and control neuronal morphogenesis
Title: hnRNP Q regulates Cdc42-mediated neuronal morphogenesis.
These data suggest that the PRMT1-mediated methylation of hnRNPQ is implicated in insulin receptor trafficking and insulin signaling in skeletal L6 myotubes.
Title: Involvement of PRMT1 in hnRNPQ activation and internalization of insulin receptor.
SYNCRIP is transported within the dendrite as a component of mRNA granules
Title: An RNA-interacting protein, SYNCRIP (heterogeneous nuclear ribonuclear protein Q1/NSAP1) is a component of mRNA granule transported with inositol 1,4,5-trisphosphate receptor type 1 mRNA in neuronal dendrites.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

BE111826 (e-PCR)
- UniSTS:245791

BE118931 (e-PCR)
- UniSTS:248906

SGC32670 (e-PCR)
- UniSTS:3195

RH143379 (e-PCR)
- UniSTS:232626

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

RH132241 (e-PCR)
- UniSTS:215524

RH16146 (e-PCR)
- UniSTS:77811

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables mRNA 3'-UTR binding	IDA Inferred from Direct Assay more info	PubMed
enables mRNA 5'-UTR binding	IBA Inferred from Biological aspect of Ancestor more info
enables mRNA 5'-UTR binding	IDA Inferred from Direct Assay more info	PubMed
enables poly(A) binding	ISO Inferred from Sequence Orthology more info

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	IEA Inferred from Electronic Annotation more info
involved_in CRD-mediated mRNA stabilization	ISO Inferred from Sequence Orthology more info
involved_in RNA splicing	IEA Inferred from Electronic Annotation more info
involved_in cellular response to type II interferon	IEA Inferred from Electronic Annotation more info
involved_in cellular response to type II interferon	ISO Inferred from Sequence Orthology more info
involved_in circadian rhythm	IEP Inferred from Expression Pattern more info	PubMed
involved_in mRNA modification	ISO Inferred from Sequence Orthology more info
involved_in mRNA processing	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of mRNA modification	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay	IEA Inferred from Electronic Annotation 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	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of translation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cytoplasmic translation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of cytoplasmic translation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of translation	IMP Inferred from Mutant Phenotype 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	IEA Inferred from Electronic Annotation more info
part_of CRD-mediated mRNA stability complex	ISO Inferred from Sequence Orthology more info
part_of CRD-mediated mRNA stability complex	ISS Inferred from Sequence or Structural Similarity more info
part_of GAIT complex	IEA Inferred from Electronic Annotation more info
part_of GAIT complex	ISO Inferred from Sequence Orthology more info
part_of catalytic step 2 spliceosome	IEA Inferred from Electronic Annotation more info
part_of catalytic step 2 spliceosome	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum	IEA Inferred from Electronic Annotation more info
is_active_in glutamatergic synapse	IDA Inferred from Direct Assay more info	PubMed
part_of histone pre-mRNA 3'end processing complex	ISO Inferred from Sequence Orthology more info
part_of histone pre-mRNA 3'end processing complex	ISS Inferred from Sequence or Structural Similarity more info
part_of mCRD-mediated mRNA stability complex	IEA Inferred from Electronic Annotation more info
part_of mCRD-mediated mRNA stability complex	ISO Inferred from Sequence Orthology more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in neuronal cell body	IDA Inferred from Direct Assay more info	PubMed
located_in nucleoplasm	IEA Inferred from Electronic Annotation 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
is_active_in postsynaptic density	IDA Inferred from Direct Assay more info	PubMed
located_in proximal dendrite	IDA Inferred from Direct Assay more info	PubMed
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 ribonucleoprotein complex	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: heterogeneous nuclear ribonucleoprotein Q

Names: hnRNP-Q; liver regeneration-related protein LRRG077

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_001047916.3 → NP_001041381.1 heterogeneous nuclear ribonucleoprotein Q isoform 1

See identical proteins and their annotated locations for NP_001041381.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000008

UniProtKB/Swiss-Prot

Q7TP47

UniProtKB/TrEMBL

A0A8I5ZZ72

Related

ENSRNOP00000048433.4, ENSRNOT00000041655.5

Conserved Domains (4) summary

cd12483
Location:71 → 149

RRM1_hnRNPQ; RNA recognition motif 1 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)

cd12489
Location:151 → 235

RRM2_hnRNPQ; RNA recognition motif 2 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)

cd12494
Location:247 → 318

RRM3_hnRNPR; RNA recognition motif 3 in vertebrate heterogeneous nuclear ribonucleoprotein R (hnRNP R)

TIGR01648
Location:50 → 525

hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
NM_001395649.1 → NP_001382578.1 heterogeneous nuclear ribonucleoprotein Q isoform 2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000008

UniProtKB/TrEMBL

A0A0G2K9J1, A0A8I5ZZ72

Related

ENSRNOP00000075015.2, ENSRNOT00000078891.2

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
NM_001395650.1 → NP_001382579.1 heterogeneous nuclear ribonucleoprotein Q isoform 3

Status: VALIDATED

Source sequence(s)

JAXUCZ010000008

UniProtKB/TrEMBL

A0A8I5ZZ72

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_001395651.1 → NP_001382580.1 heterogeneous nuclear ribonucleoprotein Q isoform 4

Status: VALIDATED

Source sequence(s)

JAXUCZ010000008

UniProtKB/TrEMBL

M0R735

Related

ENSRNOP00000065252.3, ENSRNOT00000074515.3

Conserved Domains (2) summary

TIGR01648
Location:103 → 615

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_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086026.1 Reference GRCr8

Range

98282358..98315412 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063265796.1 → XP_063121866.1 heterogeneous nuclear ribonucleoprotein Q isoform X2

UniProtKB/TrEMBL

M0R735
XM_063265795.1 → XP_063121865.1 heterogeneous nuclear ribonucleoprotein Q isoform X1

UniProtKB/TrEMBL

M0R735
XM_063265799.1 → XP_063121869.1 heterogeneous nuclear ribonucleoprotein Q isoform X6

UniProtKB/TrEMBL

A0A8I5ZZ72
XM_006243514.4 → XP_006243576.1 heterogeneous nuclear ribonucleoprotein Q isoform X3

UniProtKB/TrEMBL

M0R735

Conserved Domains (3) summary

cd12495
Location:291 → 362

RRM3_hnRNPQ; RNA recognition motif 3 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)

TIGR01648
Location:103 → 569

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

cl17169
Location:161 → 222

RRM_SF; RNA recognition motif (RRM) superfamily
XM_006243518.5 → XP_006243580.1 heterogeneous nuclear ribonucleoprotein Q isoform X4

Conserved Domains (4) summary

cd12483
Location:63 → 141

RRM1_hnRNPQ; RNA recognition motif 1 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)

cd12489
Location:143 → 227

RRM2_hnRNPQ; RNA recognition motif 2 in vertebrate heterogeneous nuclear ribonucleoprotein Q (hnRNP Q)

cd12494
Location:239 → 310

RRM3_hnRNPR; RNA recognition motif 3 in vertebrate heterogeneous nuclear ribonucleoprotein R (hnRNP R)

TIGR01648
Location:5 → 517

hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
XM_063265798.1 → XP_063121868.1 heterogeneous nuclear ribonucleoprotein Q isoform X5
XM_039081769.2 → XP_038937697.1 heterogeneous nuclear ribonucleoprotein Q isoform X7

Conserved Domains (1) summary

TIGR01648
Location:1 → 309

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