LOC687679 (similar to small nuclear ribonucleoprotein polypeptide G) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: LOC687679 (similar to small nuclear ribonucleoprotein polypeptide G) Rattus norvegicus
Analyze
Symbol: LOC687679 (Ensembl: Snrpg)
Name: similar to small nuclear ribonucleoprotein polypeptide G
RGD ID: 1583028
Description: Predicted to contribute to RNA binding activity. Predicted to be involved in mRNA splicing, via spliceosome. Predicted to be part of SMN-Sm protein complex and nucleus. Predicted to be active in P granule. Orthologous to several human genes including SNRPG (small nuclear ribonucleoprotein polypeptide G); INTERACTS WITH butan-1-ol (ortholog).
Type: protein-coding
RefSeq Status: INFERRED
Previously known as: small nuclear ribonucleoprotein G
RGD Orthologs
Human
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2187,982,659 - 87,983,067 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl187,982,626 - 87,983,118 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.0191,588,215 - 91,588,629 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl191,588,228 - 91,588,609 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl4118,167,294 - 118,174,842 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0192,715,868 - 92,716,263 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera182,332,317 - 82,332,731 (-)NCBICelera
Cytogenetic Map1q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
butan-1-ol  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Molecular Function
RNA binding  (IBA)

References

References - curated
# Reference Title Reference Citation
1. 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.
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
LOC687679
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2187,982,659 - 87,983,067 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl187,982,626 - 87,983,118 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.0191,588,215 - 91,588,629 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl191,588,228 - 91,588,609 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl4118,167,294 - 118,174,842 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0192,715,868 - 92,716,263 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera182,332,317 - 82,332,731 (-)NCBICelera
Cytogenetic Map1q21NCBI
SNRPGP15
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381914,489,297 - 14,489,890 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1914,489,388 - 14,489,609 (+)EnsemblGRCh38hg38GRCh38
GRCh371914,600,109 - 14,600,702 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361914,460,664 - 14,461,707 (+)NCBINCBI36Build 36hg18NCBI36
Celera1914,493,858 - 14,494,791 (+)NCBICelera
Cytogenetic Map19p13.12NCBI
HuRef1914,170,155 - 14,170,729 (+)NCBIHuRef
CHM1_11914,600,076 - 14,600,650 (+)NCBICHM1_1
T2T-CHM13v2.01914,615,911 - 14,616,504 (+)NCBIT2T-CHM13v2.0


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631688Hcas2Hepatocarcinoma susceptibility QTL 230.0001liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)15925874115540829Rat
631495Bp96Blood pressure QTL 964.52arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)122340647102268831Rat
1358359Sradr1Stress Responsive Adrenal Weight QTL 14.74adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)130882023123479925Rat
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132356093162846471Rat
1300172Bp172Blood pressure QTL 1723.56arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)13273727390665040Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132737458199368955Rat
2313051Bss57Bone structure and strength QTL 573.70.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)143284731118944897Rat
2313059Bss55Bone structure and strength QTL 553.20.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143284731118944897Rat
2313072Bss53Bone structure and strength QTL 534.30.0001tibia length (VT:0004357)tibia length (CMO:0000450)143284731118944897Rat
2313078Bss54Bone structure and strength QTL 543.50.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)143284731118944897Rat
2313094Bss58Bone structure and strength QTL 583.70.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143284731118944897Rat
2313098Bmd70Bone mineral density QTL 703.60.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)143284731118944897Rat
2313099Bss56Bone structure and strength QTL 562.40.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143284731118944897Rat
2302059Pia36Pristane induced arthritis QTL 363.80.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)14333300288333002Rat
2313402Anxrr24Anxiety related response QTL 24aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)148963584144267916Rat
1578649Bmd8Bone mineral density QTL 84.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)14939317294393172Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)149393172159356837Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149393289199050459Rat
6903308Scl36Serum cholesterol QTL 3620.0125blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)15386304190532583Rat
61342Bp27Blood pressure QTL 273.40.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)15673266898773277Rat
2300164Bmd44Bone mineral density QTL 445.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)156949932101949932Rat
2298545Neuinf8Neuroinflammation QTL 84.6nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)157336763151090257Rat
1300121Hrtrt1Heart rate QTL 13.7heart pumping trait (VT:2000009)heart rate (CMO:0000002)165789093115540829Rat
7421628Bp361Blood pressure QTL 3610.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)166023617118608521Rat
631512Scl6Serum cholesterol level QTL 69.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)17219768090508767Rat
1358192Ept13Estrogen-induced pituitary tumorigenesis QTL 133.4pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)177494165122494165Rat
10054135Gmadr2Adrenal mass QTL 21.970.0129adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)177857876122857876Rat
1549903Bp267Blood pressure QTL 267arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)177876254106047988Rat
61344Bp29Blood pressure QTL 297.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)178350581123350581Rat
7411712Strs4Sensitivity to stroke QTL 48.7cerebrum integrity trait (VT:0010549)percentage of study population developing cerebrovascular lesions during a period of time (CMO:0000932)178430536123430536Rat
61433Cia2Collagen induced arthritis QTL 25joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)17843075491209302Rat
1582234Gluco18Glucose level QTL 183.40.0003blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)178479925123479925Rat
4889494Scort2Serum corticosterone level QTL 24.2blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)180592172125592172Rat
1578780Cm52Cardiac mass QTL 523.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)181591954219808434Rat
2313083Bmd74Bone mineral density QTL 7440.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)182174743118944897Rat
738022Anxrr13Anxiety related response QTL 134.60.00039locomotor behavior trait (VT:0001392)number of 20 x 20 cm floor squares crossed into, out of or within a discrete space in an experimental apparatus (CMO:0001514)183547917128547917Rat
2300324Fetw1Fetal weight QTL 112.10.005fetal growth trait (VT:0004201)fetal body weight (CMO:0002080)185424647100358001Rat
724529Cm16Cardiac mass QTL 162.7heart mass (VT:0007028)calculated heart weight (CMO:0000073)187580395150700247Rat


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000022367   ⟹   ENSRNOP00000022367
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4118,812,252 - 118,819,826 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000050931   ⟹   ENSRNOP00000063961
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl187,982,626 - 87,983,118 (-)Ensembl
Rnor_6.0 Ensembl191,588,228 - 91,588,609 (-)Ensembl
RefSeq Acc Id: XM_003748839   ⟹   XP_003748887
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2187,982,659 - 87,983,067 (-)NCBI
Rnor_6.0191,588,215 - 91,588,629 (-)NCBI
Rnor_5.0192,715,868 - 92,716,263 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001396106 (Get FASTA)   NCBI Sequence Viewer  
  XP_003748887 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_003748887   ⟸   XM_003748839
- UniProtKB: B5DEP7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000063961   ⟸   ENSRNOT00000050931
RefSeq Acc Id: ENSRNOP00000022367   ⟸   ENSRNOT00000022367
Protein Domains
Sm

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B5DEP7-F1-model_v2 AlphaFold B5DEP7 1-76 view protein structure

Transcriptome

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

Promoters
RGD ID:13689973
Promoter ID:EPDNEW_R492
Type:single initiation site
Name:LOC687679_1
Description:similar to small nuclear ribonucleoprotein polypeptide G
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_6.0191,588,610 - 91,588,670EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1583028 AgrOrtholog
BioCyc Gene G2FUF-59976 BioCyc
Ensembl Genes ENSRNOG00000016507 Ensembl, UniProtKB/TrEMBL
  ENSRNOG00000032232 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000022367.2 UniProtKB/TrEMBL
  ENSRNOP00000063961 ENTREZGENE
  ENSRNOP00000063961.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000022367.4 UniProtKB/TrEMBL
  ENSRNOT00000050931 ENTREZGENE
  ENSRNOT00000050931.4 UniProtKB/TrEMBL
InterPro Lsm7/SmG-like UniProtKB/TrEMBL
  LSM_dom UniProtKB/TrEMBL
  Ribonucl_LSM UniProtKB/TrEMBL
  Sm_G UniProtKB/TrEMBL
KEGG Report rno:681031 UniProtKB/TrEMBL
  rno:687679 UniProtKB/TrEMBL
NCBI Gene 687679 ENTREZGENE
PANTHER PTHR10553 UniProtKB/TrEMBL
Pfam LSM UniProtKB/TrEMBL
PhenoGen LOC687679 PhenoGen
SMART SM00651 UniProtKB/TrEMBL
Superfamily-SCOP SSF50182 UniProtKB/TrEMBL
UniProt B5DEP7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2006-11-19 LOC687679  similar to small nuclear ribonucleoprotein polypeptide G      Symbol and Name status set to provisional 70820 PROVISIONAL