Snrpb (small nuclear ribonucleoprotein polypeptides B and B1) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Snrpb (small nuclear ribonucleoprotein polypeptides B and B1) Rattus norvegicus
Analyze
Symbol: Snrpb
Name: small nuclear ribonucleoprotein polypeptides B and B1
RGD ID: 621301
Description: Enables U1 snRNP binding activity and U2 snRNP binding activity. Predicted to be involved in spliceosomal snRNP assembly. Predicted to act upstream of or within protein methylation. Part of U1 snRNP and U2 snRNP. Human ortholog(s) of this gene implicated in cerebrocostomandibular syndrome and mixed connective tissue disease. Orthologous to human SNRPB (small nuclear ribonucleoprotein polypeptides B and B1); PARTICIPATES IN spliceosome pathway; systemic lupus erythematosus pathway; INTERACTS WITH 2,4-dinitrotoluene; 6-propyl-2-thiouracil; amitrole.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: sm protein B; sm-B; SM11; small nuclear ribonucleoprotein-associated protein B; smB; snRNP-B
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Related Pseudogenes: Snrpb-ps1  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83137,824,870 - 137,832,479 (-)NCBIGRCr8
mRatBN7.23117,369,816 - 117,379,344 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3117,370,100 - 117,379,339 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3121,269,784 - 121,277,399 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03129,865,407 - 129,873,022 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03127,525,903 - 127,533,514 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03122,696,125 - 122,703,734 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3122,695,939 - 122,703,734 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03129,196,987 - 129,204,596 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43117,770,454 - 117,778,063 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.13117,676,055 - 117,681,341 (-)NCBI
Celera3116,187,312 - 116,194,920 (-)NCBICelera
Cytogenetic Map3q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4-dinitrotoluene  (EXP)
6-propyl-2-thiouracil  (EXP)
actinomycin D  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
amitrole  (EXP)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
aristolochic acid A  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
atrazine  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
calcitriol  (ISO)
CGP 52608  (ISO)
chlorpyrifos  (ISO)
choline  (ISO)
chromium(6+)  (ISO)
ciguatoxin CTX1B  (ISO)
cisplatin  (ISO)
clobetasol  (ISO)
clozapine  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
coumestrol  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (ISO)
elemental selenium  (ISO)
Enterolactone  (ISO)
fenthion  (ISO)
fipronil  (EXP)
flutamide  (EXP)
folic acid  (ISO)
folpet  (ISO)
gentamycin  (EXP)
glafenine  (EXP)
hydralazine  (ISO)
isoprenaline  (ISO)
ivermectin  (ISO)
L-methionine  (ISO)
lead(0)  (ISO)
methidathion  (ISO)
methimazole  (EXP)
methotrexate  (ISO)
N-methyl-4-phenylpyridinium  (EXP)
nefazodone  (EXP)
nickel sulfate  (ISO)
Nutlin-3  (ISO)
paracetamol  (ISO)
propiconazole  (EXP)
selenium atom  (ISO)
sodium arsenite  (ISO)
Soman  (EXP)
sulfadimethoxine  (EXP)
sunitinib  (ISO)
tamoxifen  (ISO)
temozolomide  (ISO)
thapsigargin  (EXP)
titanium dioxide  (ISO)
trichloroethene  (EXP)
triphenyl phosphate  (ISO)
valproic acid  (ISO)
vitamin E  (ISO)
Yessotoxin  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. 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.
2. The U2 small nuclear ribonucleoprotein particle as an autoantigen. Analysis with sera from patients with overlap syndromes. Craft J, etal., J Clin Invest. 1988 Jun;81(6):1716-24.
3. 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.
4. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
5. Expression of the SmN splicing protein is developmentally regulated in the rodent brain but not in the rodent heart. Grimaldi K, etal., Dev Biol. 1993 Apr;156(2):319-23.
6. The snRNP core protein SmB and tissue-specific SmN protein are differentially distributed between snRNP particles. Huntriss JD, etal., Nucleic Acids Res. 1993 Aug 25;21(17):4047-53.
7. Isolation of cDNA clones encoding small nuclear ribonucleoparticle-associated proteins with different tissue specificities. Li S, etal., Proc Natl Acad Sci U S A 1989 Dec;86(24):9778-82.
8. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
9. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
10. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
11. GOA pipeline RGD automated data pipeline
12. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
13. Cerebro-costo-mandibular syndrome: Clinical, radiological, and genetic findings. Tooley M, etal., Am J Med Genet A. 2016 May;170A(5):1115-26. doi: 10.1002/ajmg.a.37587. Epub 2016 Mar 12.
14. Identification of novel deregulated RNA metabolism-related genes in non-small cell lung cancer. Valles I, etal., PLoS One. 2012;7(8):e42086. doi: 10.1371/journal.pone.0042086. Epub 2012 Aug 2.
15. The spliceosome: design principles of a dynamic RNP machine. Wahl MC, etal., Cell. 2009 Feb 20;136(4):701-18. doi: 10.1016/j.cell.2009.02.009.
Additional References at PubMed
PMID:11574479   PMID:11991638   PMID:12477932   PMID:15146077   PMID:15369763   PMID:18082603   PMID:18495660   PMID:18984161   PMID:19470752   PMID:21113136   PMID:21516107   PMID:22681889  
PMID:23376485   PMID:24625528   PMID:25555158   PMID:26912367   PMID:28076346   PMID:28781166  


Genomics

Comparative Map Data
Snrpb
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83137,824,870 - 137,832,479 (-)NCBIGRCr8
mRatBN7.23117,369,816 - 117,379,344 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3117,370,100 - 117,379,339 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3121,269,784 - 121,277,399 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03129,865,407 - 129,873,022 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03127,525,903 - 127,533,514 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03122,696,125 - 122,703,734 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3122,695,939 - 122,703,734 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03129,196,987 - 129,204,596 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43117,770,454 - 117,778,063 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.13117,676,055 - 117,681,341 (-)NCBI
Celera3116,187,312 - 116,194,920 (-)NCBICelera
Cytogenetic Map3q36NCBI
SNRPB
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38202,461,642 - 2,470,789 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl202,461,634 - 2,470,853 (-)EnsemblGRCh38hg38GRCh38
GRCh37202,442,288 - 2,451,435 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36202,390,281 - 2,399,499 (-)NCBINCBI36Build 36hg18NCBI36
Build 34202,390,280 - 2,399,499NCBI
Celera202,506,726 - 2,515,940 (-)NCBICelera
Cytogenetic Map20p13NCBI
HuRef202,392,318 - 2,401,533 (-)NCBIHuRef
CHM1_1202,442,630 - 2,451,845 (-)NCBICHM1_1
T2T-CHM13v2.0202,492,015 - 2,501,159 (-)NCBIT2T-CHM13v2.0
Snrpb
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392130,013,560 - 130,031,184 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2130,013,555 - 130,021,323 (-)EnsemblGRCm39 Ensembl
GRCm382130,171,636 - 130,179,382 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2130,171,414 - 130,179,403 (-)EnsemblGRCm38mm10GRCm38
MGSCv372129,997,372 - 130,005,100 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362129,863,087 - 129,870,802 (-)NCBIMGSCv36mm8
Celera2131,396,116 - 131,403,844 (-)NCBICelera
Cytogenetic Map2F1NCBI
cM Map263.19NCBI
Snrpb
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541513,520,530 - 13,531,466 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541513,522,638 - 13,530,725 (-)NCBIChiLan1.0ChiLan1.0
SNRPB
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2213,452,181 - 3,461,468 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1203,449,012 - 3,458,251 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0202,571,393 - 2,580,642 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1202,335,499 - 2,344,763 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl202,335,499 - 2,344,763 (-)Ensemblpanpan1.1panPan2
SNRPB
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12418,673,975 - 18,683,315 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2418,674,039 - 18,683,229 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2418,503,090 - 18,512,433 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02419,131,533 - 19,140,918 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2419,131,583 - 19,140,916 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12418,687,465 - 18,696,814 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02418,798,089 - 18,807,428 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02419,126,999 - 19,136,354 (+)NCBIUU_Cfam_GSD_1.0
Snrpb
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640167,710,846 - 167,732,709 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493648516,157,485 - 16,163,698 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493648516,142,231 - 16,161,761 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SNRPB
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1733,080,407 - 33,094,602 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11733,072,104 - 33,094,847 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21737,510,693 - 37,512,404 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SNRPB
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1254,064,240 - 54,073,341 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl254,063,999 - 54,073,367 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666087480,215 - 489,316 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Snrpb
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247413,691,676 - 3,703,255 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247413,694,488 - 3,703,169 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Snrpb
21 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:272
Count of miRNA genes:174
Interacting mature miRNAs:202
Transcripts:ENSRNOT00000049857
Prediction methods:Microtar, 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
2312673Scl63Serum cholesterol level QTL 630.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)398535255168026850Rat
2301414Kidm37Kidney mass QTL 370.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)370653097121056321Rat
2302373Gluco39Glucose level QTL 395.01blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)398535386161695835Rat
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)331172320163586636Rat
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)347233211147415807Rat
1358362Srcrt2Stress Responsive Cort QTL 22.78blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)338192233133483320Rat
737818Hcar12Hepatocarcinoma resistance QTL 122.6liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)329463235118376539Rat
1581568Rf53Renal function QTL 53urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)356395968161299569Rat
1578754Stresp16Stress response QTL 1640.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)3112681431157681431Rat
1300111Rf12Renal function QTL 123.78renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)361017749121056321Rat
1600376Arunc5Aerobic running capacity QTL 50.21exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)373376539118376539Rat
8694437Bw167Body weight QTL 16722.460.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)391797474136797474Rat
8662816Vetf4Vascular elastic tissue fragility QTL 44renal artery integrity trait (VT:0010642)number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)359242096157323038Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)343827364169034231Rat
1581503Cm58Cardiac mass QTL 582.70.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)343827364121056321Rat
1354611Despr2Despair related QTL 23.030.0028locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)397084464142084464Rat
631649Bp123Blood pressure QTL 1233.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)389772419134772419Rat
631841Niddm39Non-insulin dependent diabetes mellitus QTL 393.36blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)394856903159898684Rat
1358204Insglur1Insulin/glucose ratio QTL 13.8blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)3115638168135181505Rat
619618Rf3Renal disease susceptibility QTL 36.50.001urine albumin amount (VT:0002871)urine albumin excretion rate to body weight ratio (CMO:0001270)3107693393152693393Rat
12879848Bw181Body weght QTL 1810.015body mass (VT:0001259)body weight (CMO:0000012)370348525121056321Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)341874578155617519Rat
2312659Slep7Serum leptin concentration QTL 70.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)398535255168026850Rat
1358885Bp251Blood pressure QTL 2513.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)314489145121056321Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)341874578155617519Rat
1581546Pur13Proteinuria QTL 132.930.0335urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)378196190146592722Rat
631665Bw8Body weight QTL 85.5body mass (VT:0001259)body weight (CMO:0000012)350437042119183768Rat
1331758Bp207Blood pressure QTL 2072.848arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3112287552135181505Rat
1358888Bp264Blood pressure QTL 2644.43arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)314489145121056321Rat
2293087Iddm27Insulin dependent diabetes mellitus QTL 272.68blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)397551417147415807Rat
2312670Bw94Body weight QTL 940.01inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)398535255168026850Rat
724532Cm17Cardiac mass QTL 172heart mass (VT:0007028)calculated heart weight (CMO:0000073)395735366140735366Rat

Markers in Region
MARC_5069-5070:996690109:1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23117,373,173 - 117,373,799 (+)MAPPERmRatBN7.2
Rnor_6.03122,697,568 - 122,698,193NCBIRnor6.0
Rnor_5.03129,198,430 - 129,199,055UniSTSRnor5.0
RGSC_v3.43117,771,897 - 117,772,522UniSTSRGSC3.4
Celera3116,188,755 - 116,189,380UniSTS
Cytogenetic Map3q36UniSTS
RH125534  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23117,371,853 - 117,371,969 (+)MAPPERmRatBN7.2
Rnor_6.03122,696,248 - 122,696,363NCBIRnor6.0
Rnor_5.03129,197,110 - 129,197,225UniSTSRnor5.0
RGSC_v3.43117,770,577 - 117,770,692UniSTSRGSC3.4
Celera3116,187,435 - 116,187,550UniSTS
Cytogenetic Map3q36UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000049857   ⟹   ENSRNOP00000039298
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3117,370,100 - 117,379,339 (-)Ensembl
Rnor_6.0 Ensembl3122,696,130 - 122,703,734 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000079923   ⟹   ENSRNOP00000072319
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3117,371,545 - 117,379,315 (-)Ensembl
Rnor_6.0 Ensembl3122,695,939 - 122,703,705 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000109850   ⟹   ENSRNOP00000095395
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3117,371,545 - 117,377,117 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000118374   ⟹   ENSRNOP00000096159
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3117,370,107 - 117,379,326 (-)Ensembl
RefSeq Acc Id: NM_134358   ⟹   NP_599185
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83137,824,870 - 137,832,479 (-)NCBI
mRatBN7.23117,371,731 - 117,379,344 (-)NCBI
Rnor_6.03122,696,125 - 122,703,734 (-)NCBI
Rnor_5.03129,196,987 - 129,204,596 (-)NCBI
RGSC_v3.43117,770,454 - 117,778,063 (-)RGD
Celera3116,187,312 - 116,194,920 (-)RGD
Sequence:
RefSeq Acc Id: XM_039104198   ⟹   XP_038960126
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83137,824,870 - 137,829,784 (-)NCBI
mRatBN7.23117,369,816 - 117,376,652 (-)NCBI
RefSeq Acc Id: NP_599185   ⟸   NM_134358
- UniProtKB: P17136 (UniProtKB/Swiss-Prot),   B0BN51 (UniProtKB/TrEMBL),   Q63747 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000072319   ⟸   ENSRNOT00000079923
Ensembl Acc Id: ENSRNOP00000039298   ⟸   ENSRNOT00000049857
RefSeq Acc Id: XP_038960126   ⟸   XM_039104198
- Peptide Label: isoform X1
Ensembl Acc Id: ENSRNOP00000095395   ⟸   ENSRNOT00000109850
Ensembl Acc Id: ENSRNOP00000096159   ⟸   ENSRNOT00000118374
Protein Domains
Sm

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P17136-F1-model_v2 AlphaFold P17136 1-231 view protein structure

Transcriptome

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

Promoters
RGD ID:13692427
Promoter ID:EPDNEW_R2952
Type:initiation region
Name:Snrpb_1
Description:small nuclear ribonucleoprotein polypeptides B and B1
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_6.03122,703,737 - 122,703,797EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621301 AgrOrtholog
BioCyc Gene G2FUF-47877 BioCyc
Ensembl Genes ENSRNOG00000006961 Ensembl, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00055006069 UniProtKB/Swiss-Prot
  ENSRNOG00060016234 UniProtKB/Swiss-Prot
  ENSRNOG00065014424 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000049857.5 UniProtKB/Swiss-Prot
  ENSRNOT00000079923.2 UniProtKB/TrEMBL
  ENSRNOT00000109850.1 UniProtKB/TrEMBL
  ENSRNOT00000118374.1 UniProtKB/TrEMBL
  ENSRNOT00055009846 UniProtKB/Swiss-Prot
  ENSRNOT00060027813 UniProtKB/Swiss-Prot
  ENSRNOT00065023825 UniProtKB/Swiss-Prot
Gene3D-CATH 2.30.30.100 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:8374870 IMAGE-MGC_LOAD
InterPro IPR047575 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LSM_dom_euk/arc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LSM_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  snRNP-assoc_SmB/SmN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  snRNP_SmB_SmN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:171365 UniProtKB/Swiss-Prot
MGC_CLONE MGC:187701 IMAGE-MGC_LOAD
NCBI Gene 171365 ENTREZGENE
PANTHER SMALL NUCLEAR RIBONUCLEOPROTEIN-ASSOCIATED PROTEIN B UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SMALL NUCLEAR RIBONUCLEOPROTEIN-ASSOCIATED PROTEIN B AND N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SMALL NUCLEAR RIBONUCLEOPROTEIN-ASSOCIATED PROTEIN N UniProtKB/TrEMBL
  SMALL NUCLEAR RIBONUCLEOPROTEIN-ASSOCIATED PROTEINS B AND B UniProtKB/TrEMBL
Pfam LSM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Snrpb PhenoGen
PIRSF snRNP_SmB/SmN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE PS52002 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000006961 RatGTEx
  ENSRNOG00055006069 RatGTEx
  ENSRNOG00060016234 RatGTEx
  ENSRNOG00065014424 RatGTEx
SMART SM00651 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF50182 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I6AMZ7_RAT UniProtKB/TrEMBL
  A0A8I6GLH2_RAT UniProtKB/TrEMBL
  B0BN51 ENTREZGENE
  P17136 ENTREZGENE
  Q5XII7_RAT UniProtKB/TrEMBL
  Q63747 ENTREZGENE, UniProtKB/TrEMBL
  RSMB_RAT UniProtKB/Swiss-Prot
UniProt Secondary B0BN51 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-08-07 Snrpb  small nuclear ribonucleoprotein polypeptides B and B1      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression mRNA expressed in heart, barely detectable in brain 729965
gene_process may play a role in differential RNA processing, such as pre-mRNA splicing 729965
gene_protein predicted protein contains 240 aa residues and masses 28 kDa 729965