Srp9 (signal recognition particle 9) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Srp9 (signal recognition particle 9) Rattus norvegicus
Analyze
Symbol: Srp9
Name: signal recognition particle 9
RGD ID: 1597343
Description: Predicted to enable 7S RNA binding activity. Predicted to be involved in SRP-dependent cotranslational protein targeting to membrane. Predicted to be part of signal recognition particle, endoplasmic reticulum targeting. Orthologous to human SRP9 (signal recognition particle 9); PARTICIPATES IN interleukin-3 signaling pathway; INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 4,4'-sulfonyldiphenol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC690345; signal recognition particle 9 kDa protein; similar to Signal recognition particle 9 kDa protein (SRP9)
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81396,364,253 - 96,372,393 (+)NCBIGRCr8
mRatBN7.21393,832,580 - 93,840,720 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1393,832,580 - 93,840,720 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1396,337,864 - 96,346,004 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01397,737,747 - 97,745,887 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01394,919,927 - 94,928,067 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.013100,551,307 - 100,559,447 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl13100,551,307 - 100,559,447 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013105,486,289 - 105,494,429 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41398,125,510 - 98,133,650 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1393,365,993 - 93,374,180 (+)NCBICelera
Cytogenetic Map13q26NCBI
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
(S)-nicotine  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (EXP)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-methylcholine  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (EXP)
4-hydroxynon-2-enal  (ISO)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (EXP)
amitrole  (EXP)
aristolochic acid A  (ISO)
arsenite(3-)  (ISO)
atrazine  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (EXP,ISO)
caffeine  (ISO)
calyculin a  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
chlorohydrocarbon  (EXP)
chloropicrin  (ISO)
chrysene  (ISO)
cisplatin  (ISO)
clotrimazole  (EXP)
copper(II) sulfate  (ISO)
cyclosporin A  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
dibenzo[a,l]pyrene  (ISO)
dicrotophos  (ISO)
doxorubicin  (ISO)
enzyme inhibitor  (ISO)
epoxiconazole  (ISO)
ethanol  (ISO)
ferroheme b  (ISO)
folic acid  (ISO)
fonofos  (ISO)
glafenine  (EXP)
gold atom  (ISO)
gold(0)  (ISO)
heme b  (ISO)
hydralazine  (ISO)
indometacin  (ISO)
ivermectin  (ISO)
methimazole  (EXP)
nicotine  (ISO)
ozone  (ISO)
parathion  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
propiconazole  (ISO)
resveratrol  (ISO)
rotenone  (ISO)
SB 431542  (ISO)
sodium fluoride  (ISO)
sulfadimethoxine  (EXP)
tamoxifen  (ISO)
terbufos  (ISO)
tetrachloromethane  (ISO)
titanium dioxide  (ISO)
trichloroethene  (EXP)
tungsten  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
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
Additional References at PubMed
PMID:22871113   PMID:23376485  


Genomics

Comparative Map Data
Srp9
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81396,364,253 - 96,372,393 (+)NCBIGRCr8
mRatBN7.21393,832,580 - 93,840,720 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1393,832,580 - 93,840,720 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1396,337,864 - 96,346,004 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01397,737,747 - 97,745,887 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01394,919,927 - 94,928,067 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.013100,551,307 - 100,559,447 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl13100,551,307 - 100,559,447 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013105,486,289 - 105,494,429 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41398,125,510 - 98,133,650 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1393,365,993 - 93,374,180 (+)NCBICelera
Cytogenetic Map13q26NCBI
SRP9
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381225,777,826 - 225,790,464 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1225,777,813 - 225,790,468 (+)EnsemblGRCh38hg38GRCh38
GRCh371225,965,528 - 225,978,166 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361224,032,154 - 224,044,787 (+)NCBINCBI36Build 36hg18NCBI36
Build 341222,272,273 - 222,284,896NCBI
Celera1199,156,523 - 199,169,222 (+)NCBICelera
Cytogenetic Map1q42.12NCBI
HuRef1196,483,476 - 196,496,108 (+)NCBIHuRef
CHM1_11227,237,869 - 227,250,522 (+)NCBICHM1_1
T2T-CHM13v2.01224,965,843 - 224,978,462 (+)NCBIT2T-CHM13v2.0
Srp9
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391181,952,302 - 181,959,980 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1181,952,302 - 181,959,972 (+)EnsemblGRCm39 Ensembl
GRCm381182,124,737 - 182,132,415 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1182,124,737 - 182,132,407 (+)EnsemblGRCm38mm10GRCm38
MGSCv371184,054,868 - 184,062,546 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361183,961,425 - 183,969,063 (+)NCBIMGSCv36mm8
Celera1189,181,350 - 189,188,997 (+)NCBICelera
Cytogenetic Map1H5NCBI
cM Map184.93NCBI
Srp9
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955520159,331 - 168,507 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955520163,713 - 168,507 (-)NCBIChiLan1.0ChiLan1.0
SRP9
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2123,747,333 - 23,760,035 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1123,695,708 - 23,708,401 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01201,238,977 - 201,251,606 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11206,240,484 - 206,252,854 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1206,240,484 - 206,252,854 (+)Ensemblpanpan1.1panPan2
SRP9
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1739,012,142 - 39,023,009 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl739,013,806 - 39,022,991 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha738,494,353 - 38,505,218 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0738,846,134 - 38,857,000 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1738,685,853 - 38,696,724 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0738,694,000 - 38,704,877 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0738,963,819 - 38,974,690 (-)NCBIUU_Cfam_GSD_1.0
Srp9
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934452,152,196 - 52,163,296 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365262,583,836 - 2,595,777 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365262,583,986 - 2,595,105 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SRP9
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1013,672,355 - 13,723,800 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11013,711,538 - 13,723,806 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21016,065,547 - 16,077,814 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SRP9
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Vero_WHO_p1.0NW_0236660553,979,556 - 3,993,001 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Srp9
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248356,206,298 - 6,212,807 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248356,205,686 - 6,211,962 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Srp9
87 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:103
Count of miRNA genes:87
Interacting mature miRNAs:98
Transcripts:ENSRNOT00000004297
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
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1330395351101056920Rat
1354655Bp241Blood pressure QTL 2413.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1356056920101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131101056920Rat
1641901Alcrsp6Alcohol response QTL 6response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)135236217197362171Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)138897350101631289Rat
2293341Glom15Glomerulus QTL 159.1kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1374862117101339893Rat
2293687Bss26Bone structure and strength QTL 264.60.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1365103704106807694Rat
2293702Bss34Bone structure and strength QTL 344.610.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1365103704106807694Rat
4889606Gluco63Glucose level QTL 632.860.003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1380753256106807694Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1320605871101339738Rat
8655959Pur32Proteinuria QTL 328.4urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)137402391897213863Rat
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1361825626106807694Rat

Markers in Region
RH130766  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21393,840,304 - 93,840,489 (+)MAPPERmRatBN7.2
Rnor_6.013100,559,032 - 100,559,216NCBIRnor6.0
Rnor_5.013105,494,014 - 105,494,198UniSTSRnor5.0
RGSC_v3.41398,133,235 - 98,133,419UniSTSRGSC3.4
Celera1393,373,765 - 93,373,949UniSTS
RH 3.4 Map13632.8UniSTS
Cytogenetic Map13q26UniSTS


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 11 74 35 41 11 8
Low
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000004297   ⟹   ENSRNOP00000004297
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1393,832,580 - 93,840,720 (+)Ensembl
Rnor_6.0 Ensembl13100,551,307 - 100,559,447 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000094961   ⟹   ENSRNOP00000092364
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1393,832,653 - 93,840,168 (+)Ensembl
RefSeq Acc Id: NM_001126095   ⟹   NP_001119567
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81396,364,253 - 96,372,393 (+)NCBI
mRatBN7.21393,832,580 - 93,840,720 (+)NCBI
Rnor_6.013100,551,307 - 100,559,447 (+)NCBI
Rnor_5.013105,486,289 - 105,494,429 (+)NCBI
RGSC_v3.41398,125,510 - 98,133,650 (+)RGD
Celera1393,365,993 - 93,374,180 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001119567 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL94865 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000004297
  ENSRNOP00000004297.2
  ENSRNOP00000092364.1
RefSeq Acc Id: NP_001119567   ⟸   NM_001126095
- UniProtKB: D4A511 (UniProtKB/TrEMBL),   A6JGK9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000004297   ⟸   ENSRNOT00000004297
RefSeq Acc Id: ENSRNOP00000092364   ⟸   ENSRNOT00000094961
Protein Domains
SRP9

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A511-F1-model_v2 AlphaFold D4A511 1-86 view protein structure

Transcriptome

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

Promoters
RGD ID:13699075
Promoter ID:EPDNEW_R9600
Type:initiation region
Name:Srp9_1
Description:signal recognition particle 9
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_6.013100,551,352 - 100,551,412EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1597343 AgrOrtholog
BioCyc Gene G2FUF-17087 BioCyc
Ensembl Genes ENSRNOG00000003211 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000004297 ENTREZGENE
  ENSRNOT00000004297.4 UniProtKB/TrEMBL
  ENSRNOT00000094961.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.720.10 UniProtKB/TrEMBL
InterPro Signal_recog_particle_SRP9 UniProtKB/TrEMBL
  Signal_recog_particle_SRP9/14 UniProtKB/TrEMBL
  SRP9/Srp21 UniProtKB/TrEMBL
  SRP9_dom UniProtKB/TrEMBL
KEGG Report rno:690345 UniProtKB/TrEMBL
NCBI Gene 690345 ENTREZGENE
PANTHER PTHR12834 UniProtKB/TrEMBL
  SIGNAL RECOGNITION PARTICLE 9 KDA PROTEIN UniProtKB/TrEMBL
Pfam SRP9-21 UniProtKB/TrEMBL
PhenoGen Srp9 PhenoGen
PIRSF Signal_recog_particle_SRP9 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000003211 RatGTEx
Superfamily-SCOP SRP9/14 UniProtKB/TrEMBL
UniProt A0A8I6AHP6_RAT UniProtKB/TrEMBL
  A6JGK9 ENTREZGENE, UniProtKB/TrEMBL
  D4A511 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-07-08 Srp9  signal recognition particle 9  LOC682826  similar to Signal recognition particle 9 kDa protein (SRP9)  Data merged from RGD:1594021 1643240 APPROVED
2008-03-06 Srp9  signal recognition particle 9  LOC690345  similar to Signal recognition particle 9 kDa protein (SRP9)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC682826  similar to Signal recognition particle 9 kDa protein (SRP9)      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-20 LOC690345  similar to Signal recognition particle 9 kDa protein (SRP9)      Symbol and Name status set to provisional 70820 PROVISIONAL