SYNCRIP (synaptotagmin binding cytoplasmic RNA interacting protein) - Rat Genome Database

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Pathways
Gene: SYNCRIP (synaptotagmin binding cytoplasmic RNA interacting protein) Sus scrofa
Analyze
Symbol: SYNCRIP
Name: synaptotagmin binding cytoplasmic RNA interacting protein
RGD ID: 13971068
Description: ENCODES a protein that exhibits mRNA 3'-UTR binding (ortholog); mRNA 5'-UTR binding (ortholog); poly(A) binding (ortholog); INVOLVED IN circadian rhythm (ortholog); mRNA modification (ortholog); negative regulation of mRNA modification (ortholog); PARTICIPATES IN spliceosome pathway; ASSOCIATED WITH attention deficit hyperactivity disorder (ortholog); autism spectrum disorder (ortholog); autistic disorder (ortholog); FOUND IN glutamatergic synapse (ortholog); histone pre-mRNA 3'end processing complex (ortholog); neuronal cell body (ortholog); INTERACTS WITH deoxynivalenol
Type: protein-coding
RefSeq Status: MODEL
Previously known as: heterogeneous nuclear ribonucleoprotein Q
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl154,563,114 - 54,598,407 (-)EnsemblSscrofa11.1 EnsemblsusScr11Sscrofa11.1
Sscrofa11.1154,563,112 - 54,598,408 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2160,993,506 - 61,026,452 (-)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:14681463   PMID:17145712   PMID:22301074   PMID:34034820  


Genomics

Comparative Map Data
SYNCRIP
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl154,563,114 - 54,598,407 (-)EnsemblSscrofa11.1 EnsemblsusScr11Sscrofa11.1
Sscrofa11.1154,563,112 - 54,598,408 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2160,993,506 - 61,026,452 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SYNCRIP
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38685,607,784 - 85,643,870 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl685,607,390 - 85,644,063 (-)EnsemblGRCh38.p14 Ensemblhg38GRCh38
GRCh37686,317,502 - 86,352,604 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36686,380,658 - 86,409,746 (-)NCBIBuild 36Build 36hg18NCBI36
Build 34686,380,657 - 86,409,746NCBI
Celera686,744,699 - 86,780,252 (-)NCBICelera
Cytogenetic Map6q14.3NCBI
HuRef683,541,795 - 83,577,379 (-)NCBIHuRef
CHM1_1686,415,395 - 86,450,935 (-)NCBICHM1_1
T2T-CHM13v2.0686,824,588 - 86,863,388 (-)NCBIT2T-CHM13v2.0
Syncrip
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39988,331,417 - 88,364,645 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl988,329,062 - 88,364,653 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38988,449,364 - 88,482,591 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl988,447,009 - 88,482,574 (-)EnsemblGRCm38.p6 Ensemblmm10GRCm38
MGSCv37988,344,576 - 88,377,235 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36988,250,166 - 88,280,101 (-)NCBIMGSCv36mm8
Celera985,476,156 - 85,508,831 (-)NCBICelera
Cytogenetic Map9E3.1NCBI
cM Map947.24NCBI
Syncrip
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8898,282,358 - 98,315,412 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl898,282,358 - 98,315,386 (-)EnsemblGRCr8
mRatBN7.2889,402,487 - 89,435,517 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl889,402,866 - 89,435,515 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx895,072,072 - 95,104,990 (-)NCBIUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0893,271,285 - 93,304,203 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0891,130,505 - 91,163,359 (-)NCBIUTH_Rnor_WKY_Bbb_1.0
Dahl_SR_JrHsd899,205,102 - 99,238,223 (-)NCBI
Lyon_Normotensive8101,315,866 - 101,348,718 (-)NCBI
Lyon_Hypertensive899,805,120 - 99,837,972 (-)NCBI
F344_StmMcwi891,271,160 - 91,304,012 (-)NCBI
Rnor_6.0896,100,692 - 96,266,342 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl896,105,025 - 96,266,342 (-)EnsemblRnor_6.0 Ensemblrn6Rnor6.0
Rnor_5.0895,596,235 - 95,761,885 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4893,730,131 - 93,820,288 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera888,978,968 - 89,067,272 (-)NCBICelera
RGSC_v3.1893,749,587 - 93,774,982 (-)NCBI
Cytogenetic Map8q31NCBI
Syncrip
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541113,066,789 - 13,096,938 (-)EnsemblChiLan1.0 Ensembl
ChiLan1.0NW_00495541113,068,078 - 13,096,936 (-)NCBIChiLan1.0ChiLan1.0
SYNCRIP
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v25105,696,353 - 105,731,828 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan16103,590,900 - 103,626,474 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0683,491,803 - 83,527,256 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1686,773,004 - 86,807,623 (-)NCBIPanPan1.1PanPan1.1panPan2
SYNCRIP
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11245,613,947 - 45,644,879 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1245,618,234 - 45,644,778 (-)EnsemblCanFam3.1 EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1245,428,679 - 45,459,645 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01246,383,444 - 46,414,620 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1246,384,906 - 46,414,545 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11245,716,529 - 45,747,482 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01245,645,705 - 45,676,715 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01245,832,814 - 45,863,783 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Syncrip
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mIctTri1.hap1874,317,101 - 74,343,931 (+)NCBImIctTri1.hap1
HiC_Itri_2NW_02440494680,798,612 - 80,827,841 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365105,643,044 - 5,672,255 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365105,643,072 - 5,672,258 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SYNCRIP
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mChlSab1.0.hap11390,212,565 - 90,245,122 (+)NCBImChlSab1.0.hap1
Vero_WHO_p1.0NW_023666040186,465,592 - 186,501,124 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
ChlSab1.11310,280,627 - 10,316,690 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1310,285,130 - 10,316,197 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Syncrip
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247998,616,787 - 8,657,466 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
HetGla_female_1.0 EnsemblNW_0046247998,616,808 - 8,652,923 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl

Variants

.
Variants in SYNCRIP
712 total Variants

Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
circulatory system
ectoderm
endocrine system
endoderm
hemolymphoid system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
10 4 23 3 2 5 14 12 23 3 6 3

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_021089670 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021089676 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021089679 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021089683 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021089690 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021089693 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021089702 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_084959518 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_084959531 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_014805372 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_014805373 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_014805384 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_014805403 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_014805404 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_014805405 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AK239681 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK344479 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK346917 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK389965 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK393389 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK395267 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CU076072 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GFLN01068556 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JBREVY020000002 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSSSCT00000004748   ⟹   ENSSSCP00000004639
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl154,569,092 - 54,598,407 (-)Ensembl
Ensembl Acc Id: ENSSSCT00000055678   ⟹   ENSSSCP00000055565
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl154,563,114 - 54,597,561 (-)Ensembl
Ensembl Acc Id: ENSSSCT00000063076   ⟹   ENSSSCP00000046283
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl154,568,829 - 54,597,908 (-)Ensembl
Ensembl Acc Id: ENSSSCT00000097449   ⟹   ENSSSCP00000077310
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl154,570,222 - 54,597,908 (-)Ensembl
Ensembl Acc Id: ENSSSCT00000098614   ⟹   ENSSSCP00000080083
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl154,563,114 - 54,597,561 (-)Ensembl
Ensembl Acc Id: ENSSSCT00000104887   ⟹   ENSSSCP00000075647
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl154,569,636 - 54,597,908 (-)Ensembl
Ensembl Acc Id: ENSSSCT00000105495   ⟹   ENSSSCP00000079723
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl154,563,114 - 54,597,561 (-)Ensembl
RefSeq Acc Id: XM_021089670   ⟹   XP_020945329
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1154,563,112 - 54,597,575 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021089676   ⟹   XP_020945335
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1154,563,112 - 54,597,908 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021089679   ⟹   XP_020945338
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1154,563,112 - 54,598,406 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021089683   ⟹   XP_020945342
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1154,565,902 - 54,597,908 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021089690   ⟹   XP_020945349
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1154,565,901 - 54,597,581 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021089693   ⟹   XP_020945352
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1154,565,901 - 54,598,408 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021089702   ⟹   XP_020945361
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1154,565,902 - 54,597,583 (-)NCBI
Sequence:
RefSeq Acc Id: XP_020945338   ⟸   XM_021089679
- Peptide Label: isoform X2
- UniProtKB: A0A4X1VIP2 (UniProtKB/TrEMBL),   A0A287BGU5 (UniProtKB/TrEMBL),   A0A287AQG4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020945335   ⟸   XM_021089676
- Peptide Label: isoform X2
- UniProtKB: A0A4X1VIP2 (UniProtKB/TrEMBL),   A0A287BGU5 (UniProtKB/TrEMBL),   A0A287AQG4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020945329   ⟸   XM_021089670
- Peptide Label: isoform X1
- UniProtKB: A0A4X1VEP2 (UniProtKB/TrEMBL),   F2Z5D4 (UniProtKB/TrEMBL),   A0A8W4F8P8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020945352   ⟸   XM_021089693
- Peptide Label: isoform X1
- UniProtKB: A0A4X1VEP2 (UniProtKB/TrEMBL),   F2Z5D4 (UniProtKB/TrEMBL),   A0A8W4F8P8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020945349   ⟸   XM_021089690
- Peptide Label: isoform X4
- UniProtKB: A0A8W4F8P8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020945342   ⟸   XM_021089683
- Peptide Label: isoform X3
- UniProtKB: A0A287AQG4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020945361   ⟸   XM_021089702
- Peptide Label: isoform X5
- Sequence:
Ensembl Acc Id: ENSSSCP00000055565   ⟸   ENSSSCT00000055678
Ensembl Acc Id: ENSSSCP00000046283   ⟸   ENSSSCT00000063076
Ensembl Acc Id: ENSSSCP00000004639   ⟸   ENSSSCT00000004748
Ensembl Acc Id: ENSSSCP00000080083   ⟸   ENSSSCT00000098614
Ensembl Acc Id: ENSSSCP00000079723   ⟸   ENSSSCT00000105495
Ensembl Acc Id: ENSSSCP00000075647   ⟸   ENSSSCT00000104887
Ensembl Acc Id: ENSSSCP00000077310   ⟸   ENSSSCT00000097449
Protein Domains
RRM


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000004294 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000004748.4 UniProtKB/TrEMBL
  ENSSSCT00000055678.3 UniProtKB/TrEMBL
  ENSSSCT00000063076.3 UniProtKB/TrEMBL
  ENSSSCT00000097449.1 UniProtKB/TrEMBL
  ENSSSCT00000098614.1 UniProtKB/TrEMBL
  ENSSSCT00000104887.1 UniProtKB/TrEMBL
  ENSSSCT00000105495.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.70.330 UniProtKB/TrEMBL
InterPro hnRNP_Q_AcD UniProtKB/TrEMBL
  HnRNP_R/Q_splicing_fac UniProtKB/TrEMBL
  hnRNPQ_RRM1 UniProtKB/TrEMBL
  hnRNPQ_RRM2 UniProtKB/TrEMBL
  Nucleotide-bd_a/b_plait_sf UniProtKB/TrEMBL
  RBD_domain_sf UniProtKB/TrEMBL
  RRM_dom UniProtKB/TrEMBL
KEGG Report ssc:100154370 UniProtKB/TrEMBL
NCBI Gene SYNCRIP ENTREZGENE
PANTHER HETEROGENEOUS NUCLEAR RIBONUCLEOPROTEIN UniProtKB/TrEMBL
Pfam hnRNP_Q_AcD UniProtKB/TrEMBL
  RRM_1 UniProtKB/TrEMBL
PROSITE RRM UniProtKB/TrEMBL
SMART RRM UniProtKB/TrEMBL
Superfamily-SCOP SSF54928 UniProtKB/TrEMBL
UniProt A0A287AQG4 ENTREZGENE, UniProtKB/TrEMBL
  A0A287BGU5 ENTREZGENE
  A0A4X1VEP2 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1VIP2 ENTREZGENE, UniProtKB/TrEMBL
  A0A8W4F8P8 ENTREZGENE, UniProtKB/TrEMBL
  A0A8W4FD37_PIG UniProtKB/TrEMBL
  A0A8W4FLD9_PIG UniProtKB/TrEMBL
  A0A8W4FMF3_PIG UniProtKB/TrEMBL
  F2Z5D4 ENTREZGENE
UniProt Secondary A0A287BGU5 UniProtKB/TrEMBL
  F2Z5D4 UniProtKB/TrEMBL
VGNC ID VGNC:103185 ENTREZGENE