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

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Gene: Syncrip (synaptotagmin binding, cytoplasmic RNA interacting protein) Rattus norvegicus
Analyze
Symbol: Syncrip
Name: synaptotagmin binding, cytoplasmic RNA interacting protein
RGD ID: 1305683
Description: 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 neuronal cell body and proximal dendrite. Orthologous to human SYNCRIP (synaptotagmin binding cytoplasmic RNA interacting protein); PARTICIPATES IN spliceosome pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Ab2-339; heterogeneous nuclear ribonucleoprotein Q; hnRNP Q; hnRNP-Q; liver regeneration-related protein LRRG077; LOC100910033; LOC363113; synaptotagmin-binding, cytoplasmic RNA-interacting protein; uncharacterized LOC100910033; uncharacterized protein LOC100910033
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8898,282,358 - 98,315,412 (-)NCBIGRCr8
mRatBN7.2889,402,487 - 89,435,517 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl889,402,866 - 89,435,515 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx895,072,072 - 95,104,990 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0893,271,285 - 93,304,203 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0891,130,505 - 91,163,359 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0896,100,692 - 96,266,342 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl896,105,025 - 96,266,342 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0895,596,235 - 95,761,885 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4893,730,131 - 93,820,288 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1893,749,587 - 93,774,982 (-)NCBI
Celera888,978,968 - 89,067,272 (-)NCBICelera
Cytogenetic Map8q31NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-demecolcine  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
2-amino-14,16-dimethyloctadecan-3-ol  (ISO)
2-methylcholine  (ISO)
3',5'-cyclic UMP  (ISO)
4,4'-sulfonyldiphenol  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-fluorouracil  (ISO)
aflatoxin M1  (ISO)
all-trans-retinoic acid  (ISO)
antirheumatic drug  (ISO)
aristolochic acid A  (ISO)
Aroclor 1254  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
atrazine  (ISO)
benzatropine  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol B  (ISO)
bisphenol F  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
carbon dioxide  (ISO)
carbon nanotube  (ISO)
casticin  (ISO)
CGP 52608  (ISO)
chloropicrin  (ISO)
choline  (ISO)
chromium(6+)  (ISO)
cisplatin  (ISO)
clozapine  (ISO)
cobalt dichloride  (EXP,ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
diarsenic trioxide  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
enzyme inhibitor  (ISO)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
flutamide  (EXP)
folic acid  (ISO)
formaldehyde  (ISO)
gemcitabine  (ISO)
gentamycin  (EXP)
hydrogen peroxide  (ISO)
inulin  (ISO)
ivermectin  (ISO)
kojic acid  (ISO)
L-methionine  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
methylparaben  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
nefazodone  (EXP)
nickel atom  (ISO)
oxaliplatin  (EXP)
p-chloromercuribenzoic acid  (ISO)
panobinostat  (ISO)
paracetamol  (EXP,ISO)
parathion  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenylmercury acetate  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
pirinixic acid  (ISO)
piroxicam  (ISO)
rotenone  (EXP)
SB 431542  (ISO)
selenium atom  (ISO)
sodium arsenate  (ISO)
staurosporine  (ISO)
succimer  (ISO)
testosterone enanthate  (ISO)
tetrachloromethane  (ISO)
thapsigargin  (EXP,ISO)
thimerosal  (ISO)
titanium dioxide  (ISO)
topotecan  (EXP)
trichloroethene  (EXP)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
triptonide  (ISO)
troglitazone  (ISO)
trovafloxacin  (ISO)
tunicamycin  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vincristine  (ISO)
vitamin E  (ISO)
vorinostat  (ISO)
zearalenone  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. 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. Bannai H, etal., J Biol Chem. 2004 Dec 17;279(51):53427-34. Epub 2004 Oct 8.
2. Identification of GRY-RBP as an apolipoprotein B RNA-binding protein that interacts with both apobec-1 and apobec-1 complementation factor to modulate C to U editing. Blanc V, etal., J Biol Chem. 2001 Mar 30;276(13):10272-83. Epub 2000 Dec 27.
3. Proteomic analysis of in vivo-assembled pre-mRNA splicing complexes expands the catalog of participating factors. Chen YI, etal., Nucleic Acids Res. 2007;35(12):3928-44. Epub 2007 May 30.
4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
5. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
6. Involvement of PRMT1 in hnRNPQ activation and internalization of insulin receptor. Iwasaki H Biochem Biophys Res Commun. 2008 Jul 25;372(2):314-9. doi: 10.1016/j.bbrc.2008.05.051. Epub 2008 May 19.
7. Rhythmic control of AANAT translation by hnRNP Q in circadian melatonin production. Kim TD, etal., Genes Dev. 2007 Apr 1;21(7):797-810.
8. Rhythmic serotonin N-acetyltransferase mRNA degradation is essential for the maintenance of its circadian oscillation. Kim TD, etal., Mol Cell Biol. 2005 Apr;25(8):3232-46.
9. GOA pipeline RGD automated data pipeline
10. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
11. Proteomic analysis of an interactome for long-form AMPA receptor subunits. Santos SD, etal., J Proteome Res. 2010 Apr 5;9(4):1670-82. doi: 10.1021/pr900766r.
Additional References at PubMed
PMID:10734137   PMID:11991638   PMID:15479637   PMID:16210410   PMID:17289661   PMID:19029303   PMID:19470752   PMID:19946888   PMID:22493061   PMID:22658674   PMID:22681889   PMID:23071094  
PMID:23918799   PMID:26316108   PMID:27771350   PMID:29476059   PMID:31505169   PMID:35352799  


Genomics

Comparative Map Data
Syncrip
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8898,282,358 - 98,315,412 (-)NCBIGRCr8
mRatBN7.2889,402,487 - 89,435,517 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl889,402,866 - 89,435,515 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx895,072,072 - 95,104,990 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0893,271,285 - 93,304,203 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0891,130,505 - 91,163,359 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0896,100,692 - 96,266,342 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl896,105,025 - 96,266,342 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0895,596,235 - 95,761,885 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4893,730,131 - 93,820,288 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1893,749,587 - 93,774,982 (-)NCBI
Celera888,978,968 - 89,067,272 (-)NCBICelera
Cytogenetic Map8q31NCBI
SYNCRIP
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38685,607,784 - 85,643,870 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl685,607,779 - 85,644,063 (-)EnsemblGRCh38hg38GRCh38
GRCh37686,317,502 - 86,352,604 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36686,380,658 - 86,409,746 (-)NCBINCBI36Build 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 - 88,364,627 (-)EnsemblGRCm39 Ensembl
GRCm38988,449,364 - 88,482,591 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl988,447,009 - 88,482,574 (-)EnsemblGRCm38mm10GRCm38
MGSCv37988,344,576 - 88,377,235 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36988,250,166 - 88,280,101 (-)NCBIMGSCv36mm8
Celera985,476,156 - 85,508,831 (-)NCBICelera
Cytogenetic Map9E3.1NCBI
cM Map947.24NCBI
Syncrip
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541113,066,789 - 13,096,938 (-)EnsemblChiLan1.0
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 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1245,428,679 - 45,459,645 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01246,383,444 - 46,414,620 (-)NCBIROS_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_1.0
Syncrip
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494680,798,612 - 80,827,841 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365105,643,044 - 5,672,255 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365105,643,072 - 5,672,258 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SYNCRIP
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl154,563,114 - 54,598,407 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1154,563,112 - 54,598,408 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2160,993,506 - 61,026,452 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SYNCRIP
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11310,280,627 - 10,316,690 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1310,285,130 - 10,316,197 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666040186,465,592 - 186,501,124 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Syncrip
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247998,616,808 - 8,652,923 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247998,616,787 - 8,657,466 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Syncrip
166 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:45
Count of miRNA genes:39
Interacting mature miRNAs:45
Transcripts:ENSRNOT00000041655
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)88462195110921472Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810378157112202585Rat
731182Uae24Urinary albumin excretion QTL 246.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)81933115293965294Rat
1358892Kidm26Kidney mass QTL 263.69kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)82720571599103503Rat
1358896Bp262Blood pressure QTL 2622.89arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)82720571599103503Rat
1358907Cm40Cardiac mass QTL 401.89heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)82720571599103503Rat
8662823Vetf5Vascular elastic tissue fragility QTL 51.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)82824291299525068Rat
1549908Neudeg1Neurodegradation QTL 15.50nervous system integrity trait (VT:0010566)logarithm of the ratio of the lesioned side motor neuron count to contralateral side motor neuron count (CMO:0001986)83018886794457446Rat
1578755Pur5Proteinuria QTL 53.30.0001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)830848154101699754Rat
1578765Klgr1Kidney lesion grade QTL 13.30.0001kidney morphology trait (VT:0002135)organ lesion measurement (CMO:0000677)830848154101699754Rat
1578769Uae31Urinary albumin excretion QTL 313.30.001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)830848154101699754Rat
2316950Scl66Serum cholesterol level QTL 664.1blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)830848259105647037Rat
1331838Niddm61Non-insulin dependent diabetes mellitus QTL 613.530.0004blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)83646953599083736Rat
1358906Bp253Blood pressure QTL 25340.0004arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)84071306693965294Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)840952565123900184Rat
70161Bp62Blood pressure QTL 622.90.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)84269268490165460Rat
12879882Am8Aortic mass QTL 80.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)84329616998968765Rat
12879878Bw183Body weight QTL 1830.001body mass (VT:0001259)body weight (CMO:0000012)84329616998968765Rat
12879879Cm99Cardiac mass QTL 990.001heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)84329616998968765Rat
12879880Cm100Cardiac mass QTL 1000.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)84329616998968765Rat
12879881Cm101Cardiac mass QTL 1010.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)84329616998968765Rat
12879883Kidm65Kidney mass QTL 650.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)84329616998968765Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)846531639119088626Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)846531639119088626Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)846531639119088626Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)846531639119088626Rat
1331837Bw23Body weight QTL 234.190.00007body mass (VT:0001259)body weight (CMO:0000012)84653172299083736Rat
2303570Gluco48Glucose level QTL 482blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)84980583194805831Rat
1358912Bw51Body weight QTL 512.95body mass (VT:0001259)body weight (CMO:0000012)851351728107062046Rat
10402857Bp380Blood pressure QTL 3800.95arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)85396876598968765Rat
2301402Bp316Blood pressure QTL 3160.005arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)85396876598968765Rat
2293697Bmd39Bone mineral density QTL 39femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)85404374498968765Rat
631664Hcar3Hepatocarcinoma resistance QTL 32.90.0005liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)85423764499103503Rat
1300177Cm2Cardiac mass QTL 23.65heart mass (VT:0007028)heart weight (CMO:0000017)854259986100382532Rat
2303171Bp331Blood pressure QTL 3315.570.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)861290298119084929Rat
631653Bp125Blood pressure QTL 1253.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)866142385111142385Rat
631210Bw3Body weight QTL35.9mesenteric fat pad mass (VT:0010427)mesenteric fat pad weight to body weight ratio (CMO:0000654)869349194112783834Rat
1300171Bp184Blood pressure QTL 1843.66arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)870513503118219066Rat
8694446Bw170Body weight QTL 17012.070.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)871888757116888757Rat
9590292Uminl3Urine mineral level QTL 33.620.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)871888757116888757Rat
8694200Abfw4Abdominal fat weight QTL 49.070.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)871888757116888757Rat
8694392Bw161Body weight QTL 1618.060.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)871888757116888757Rat
1549909Stresp11Stress response QTL 116.830.0019stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)873473045118473045Rat
2300181Bmd55Bone mineral density QTL 555.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)876468691121468691Rat
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)882460758122812818Rat
2313400Anxrr25Anxiety related response QTL 25aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)889265192114019816Rat

Markers in Region
SGC32670  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2889,409,230 - 89,409,352 (+)MAPPERmRatBN7.2
Rnor_6.0896,107,056 - 96,107,177NCBIRnor6.0
Rnor_5.0895,602,599 - 95,602,720UniSTSRnor5.0
RGSC_v3.4893,729,949 - 93,730,070UniSTSRGSC3.4
Celera888,978,786 - 88,978,907UniSTS
Cytogenetic Map8q31UniSTS
BE118931  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.0895,671,753 - 95,671,904NCBIRnor5.0
Rnor_5.0895,741,289 - 95,741,440NCBIRnor5.0
RGSC_v3.4893,799,104 - 93,799,254UniSTSRGSC3.4
Celera889,046,659 - 89,046,809UniSTS
RH 3.4 Map81017.0UniSTS
Cytogenetic Map8q31UniSTS
RH132241  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.0895,664,500 - 95,664,687NCBIRnor5.0
Rnor_5.0895,734,036 - 95,734,223NCBIRnor5.0
RGSC_v3.4893,791,851 - 93,792,037UniSTSRGSC3.4
Celera889,039,406 - 89,039,592UniSTS
RH 3.4 Map81011.1UniSTS
Cytogenetic Map8q31UniSTS
RH143379  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2889,403,468 - 89,403,676 (+)MAPPERmRatBN7.2
Rnor_6.0896,101,294 - 96,101,501NCBIRnor6.0
Rnor_5.0895,596,837 - 95,597,044UniSTSRnor5.0
RGSC_v3.4893,724,187 - 93,724,394UniSTSRGSC3.4
Celera888,973,024 - 88,973,231UniSTS
RH 3.4 Map81020.9UniSTS
Cytogenetic Map8q31UniSTS
BE111826  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.0895,666,027 - 95,666,225NCBIRnor5.0
Rnor_5.0895,735,563 - 95,735,761NCBIRnor5.0
RGSC_v3.4893,793,378 - 93,793,575UniSTSRGSC3.4
Celera889,040,933 - 89,041,130UniSTS
RH 3.4 Map81015.3UniSTS
Cytogenetic Map8q31UniSTS
RH16146  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2889,414,650 - 89,415,308 (+)MAPPERmRatBN7.2
Rnor_6.0896,112,476 - 96,113,133NCBIRnor6.0
Rnor_5.0895,608,019 - 95,608,676UniSTSRnor5.0
RGSC_v3.4893,735,369 - 93,736,026UniSTSRGSC3.4
Celera888,984,060 - 88,984,717UniSTS
Cytogenetic Map8q31UniSTS
fj44g04.x1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2889,409,478 - 89,409,613 (+)MAPPERmRatBN7.2
Rnor_6.0896,107,304 - 96,107,438NCBIRnor6.0
Rnor_5.0895,602,847 - 95,602,981UniSTSRnor5.0
RGSC_v3.4893,730,197 - 93,730,331UniSTSRGSC3.4
Celera888,979,034 - 88,979,168UniSTS
Cytogenetic Map8q31UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 43 57 41 19 41 8 10 74 35 39 11 8
Low 1 2
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000041655   ⟹   ENSRNOP00000048433
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl889,409,411 - 89,433,700 (-)Ensembl
Rnor_6.0 Ensembl896,107,240 - 96,132,634 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000074515   ⟹   ENSRNOP00000065252
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl889,408,939 - 89,435,515 (-)Ensembl
Rnor_6.0 Ensembl896,105,025 - 96,203,677 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000078891   ⟹   ENSRNOP00000075015
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl889,402,866 - 89,435,515 (-)Ensembl
Rnor_6.0 Ensembl896,107,240 - 96,266,342 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000095785   ⟹   ENSRNOP00000084189
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl889,402,866 - 89,435,515 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000108724   ⟹   ENSRNOP00000084291
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl889,402,866 - 89,435,515 (-)Ensembl
RefSeq Acc Id: NM_001047916   ⟹   NP_001041381
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8898,288,558 - 98,315,386 (-)NCBI
mRatBN7.2889,408,687 - 89,435,515 (-)NCBI
Rnor_6.0896,107,238 - 96,266,342 (-)NCBI
Rnor_5.0895,596,235 - 95,761,885 (-)NCBI
RGSC_v3.4893,730,131 - 93,820,288 (-)RGD
Celera888,978,968 - 89,067,272 (-)RGD
Sequence:
RefSeq Acc Id: NM_001395649   ⟹   NP_001382578
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8898,282,358 - 98,315,386 (-)NCBI
mRatBN7.2889,402,487 - 89,435,515 (-)NCBI
RefSeq Acc Id: NM_001395650   ⟹   NP_001382579
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8898,282,358 - 98,315,386 (-)NCBI
mRatBN7.2889,402,487 - 89,435,515 (-)NCBI
RefSeq Acc Id: NM_001395651   ⟹   NP_001382580
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8898,288,558 - 98,315,386 (-)NCBI
mRatBN7.2889,408,687 - 89,435,515 (-)NCBI
RefSeq Acc Id: XM_006243514   ⟹   XP_006243576
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8898,288,558 - 98,315,387 (-)NCBI
mRatBN7.2889,408,687 - 89,435,517 (-)NCBI
Rnor_6.0896,106,055 - 96,134,392 (-)NCBI
Rnor_5.0895,596,235 - 95,761,885 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006243518   ⟹   XP_006243580
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8898,288,558 - 98,315,020 (-)NCBI
mRatBN7.2889,409,415 - 89,435,147 (-)NCBI
Rnor_6.0896,106,055 - 96,134,057 (-)NCBI
Rnor_5.0895,596,235 - 95,761,885 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039081769   ⟹   XP_038937697
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8898,288,558 - 98,309,733 (-)NCBI
mRatBN7.2889,408,687 - 89,429,281 (-)NCBI
RefSeq Acc Id: XM_063265795   ⟹   XP_063121865
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8898,282,739 - 98,315,412 (-)NCBI
RefSeq Acc Id: XM_063265796   ⟹   XP_063121866
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8898,282,739 - 98,315,412 (-)NCBI
RefSeq Acc Id: XM_063265798   ⟹   XP_063121868
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8898,288,558 - 98,313,577 (-)NCBI
RefSeq Acc Id: XM_063265799   ⟹   XP_063121869
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8898,282,739 - 98,314,975 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_001041381   ⟸   NM_001047916
- Peptide Label: isoform 1
- UniProtKB: Q7TP47 (UniProtKB/Swiss-Prot),   A0A8I5ZZ72 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006243576   ⟸   XM_006243514
- Peptide Label: isoform X3
- UniProtKB: M0R735 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006243580   ⟸   XM_006243518
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: ENSRNOP00000048433   ⟸   ENSRNOT00000041655
RefSeq Acc Id: ENSRNOP00000065252   ⟸   ENSRNOT00000074515
RefSeq Acc Id: ENSRNOP00000075015   ⟸   ENSRNOT00000078891
RefSeq Acc Id: XP_038937697   ⟸   XM_039081769
- Peptide Label: isoform X7
RefSeq Acc Id: ENSRNOP00000084189   ⟸   ENSRNOT00000095785
RefSeq Acc Id: ENSRNOP00000084291   ⟸   ENSRNOT00000108724
RefSeq Acc Id: NP_001382579   ⟸   NM_001395650
- Peptide Label: isoform 3
- UniProtKB: A0A8I5ZZ72 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001382578   ⟸   NM_001395649
- Peptide Label: isoform 2
- UniProtKB: A0A0G2K9J1 (UniProtKB/TrEMBL),   A0A8I5ZZ72 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001382580   ⟸   NM_001395651
- Peptide Label: isoform 4
- UniProtKB: M0R735 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063121866   ⟸   XM_063265796
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063121865   ⟸   XM_063265795
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063121869   ⟸   XM_063265799
- Peptide Label: isoform X6
RefSeq Acc Id: XP_063121868   ⟸   XM_063265798
- Peptide Label: isoform X5
Protein Domains
RRM

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q7TP47-F1-model_v2 AlphaFold Q7TP47 1-533 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13696175
Promoter ID:EPDNEW_R6695
Type:initiation region
Name:Syncrip_1
Description:synaptotagmin binding, cytoplasmic RNA interacting protein
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0896,203,617 - 96,203,677EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305683 AgrOrtholog
BioCyc Gene G2FUF-29609 BioCyc
Ensembl Genes ENSRNOG00000000204 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00055017437 UniProtKB/Swiss-Prot
  ENSRNOG00060012376 UniProtKB/Swiss-Prot
  ENSRNOG00065012619 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000041655 ENTREZGENE
  ENSRNOT00000041655.5 UniProtKB/Swiss-Prot
  ENSRNOT00000074515 ENTREZGENE
  ENSRNOT00000074515.3 UniProtKB/TrEMBL
  ENSRNOT00000078891 ENTREZGENE
  ENSRNOT00000078891.2 UniProtKB/TrEMBL
  ENSRNOT00000095785.1 UniProtKB/TrEMBL
  ENSRNOT00000108724.1 UniProtKB/TrEMBL
  ENSRNOT00055029508 UniProtKB/Swiss-Prot
  ENSRNOT00060021000 UniProtKB/Swiss-Prot
  ENSRNOT00065020561 UniProtKB/Swiss-Prot
Gene3D-CATH 3.30.70.330 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro hnRNP_Q_AcD UniProtKB/TrEMBL
  HnRNP_R/Q_splicing_fac UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  hnRNPQ_RRM1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  hnRNPQ_RRM2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Nucleotide-bd_a/b_plait_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RBD_domain_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RRM_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:363113 UniProtKB/Swiss-Prot
NCBI Gene 363113 ENTREZGENE
PANTHER HETEROGENEOUS NUCLEAR RIBONUCLEOPROTEIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HETEROGENEOUS NUCLEAR RIBONUCLEOPROTEIN Q UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam hnRNP_Q_AcD UniProtKB/TrEMBL
  RRM_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Syncrip PhenoGen
PROSITE RRM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000000204 RatGTEx
  ENSRNOG00055017437 RatGTEx
  ENSRNOG00060012376 RatGTEx
  ENSRNOG00065012619 RatGTEx
SMART RRM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF54928 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2K9J1 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I5ZXH7_RAT UniProtKB/TrEMBL
  A0A8I5ZZ72 ENTREZGENE, UniProtKB/TrEMBL
  HNRPQ_RAT UniProtKB/Swiss-Prot
  M0R735 ENTREZGENE, UniProtKB/TrEMBL
  Q7TP47 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Syncrip  synaptotagmin binding, cytoplasmic RNA interacting protein  LOC100910033  uncharacterized LOC100910033  Data merged from RGD:6500336 737654 PROVISIONAL
2012-07-05 LOC100910033  uncharacterized LOC100910033      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-12-06 Syncrip  synaptotagmin binding, cytoplasmic RNA interacting protein  Syncrip_predicted  synaptotagmin binding, cytoplasmic RNA interacting protein (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Syncrip_predicted  synaptotagmin binding, cytoplasmic RNA interacting protein (predicted)      Symbol and Name status set to approved 70820 APPROVED