Rnase9 (ribonuclease A family member 9) - 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 QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap)  (beta) 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) Overgo Probe Designer
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease COVID-19 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   new Genetic Models Autism Models PhenoMiner (Quantitative Phenotypes) Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes GERRC (Gene Editing Rat Resource Center) 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 Poster Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Rnase9 (ribonuclease A family member 9) Rattus norvegicus
Analyze
Symbol: Rnase9
Name: ribonuclease A family member 9
RGD ID: 1359501
Description: Predicted to enable nucleic acid binding activity. Predicted to be involved in defense response to Gram-positive bacterium. Predicted to act upstream of or within positive regulation of flagellated sperm motility involved in capacitation. Orthologous to human RNASE9 (ribonuclease A family member 9 (inactive)); INTERACTS WITH bisphenol A; carbon nanotube; silicon dioxide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: epididymis-specific RNase-like; inactive ribonuclease-like protein 9; ribonuclease 9; ribonuclease A family, member 9; ribonuclease, RNase A family, 9 (non-active); ribonuclease-like protein 9
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
mRatBN7.21524,259,525 - 24,263,079 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1524,259,525 - 24,263,079 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1527,030,693 - 27,034,247 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01527,990,103 - 27,993,661 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01526,239,248 - 26,242,802 (-)NCBIRnor_WKY
Rnor_6.01527,964,000 - 27,968,492 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1527,964,804 - 27,968,358 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01531,797,573 - 31,801,127 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41527,019,251 - 27,022,788 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11527,034,950 - 27,038,488 (-)NCBI
Celera1524,579,404 - 24,582,958 (-)NCBICelera
Cytogenetic Map15p14NCBI
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
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. The ribonuclease A superfamily of mammals and birds: identifying new members and tracing evolutionary histories. Cho S, etal., Genomics. 2005 Feb;85(2):208-20.
2. 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.
3. Discovery in silico and characterization in vitro of novel genes exclusively expressed in the mouse epididymis. Penttinen J, etal., Mol Endocrinol 2003 Nov;17(11):2138-51. Epub 2003 Aug 14.
4. GOA pipeline RGD automated data pipeline
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:17005942   PMID:24719258  


Genomics

Comparative Map Data
Rnase9
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21524,259,525 - 24,263,079 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1524,259,525 - 24,263,079 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1527,030,693 - 27,034,247 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01527,990,103 - 27,993,661 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01526,239,248 - 26,242,802 (-)NCBIRnor_WKY
Rnor_6.01527,964,000 - 27,968,492 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1527,964,804 - 27,968,358 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01531,797,573 - 31,801,127 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41527,019,251 - 27,022,788 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11527,034,950 - 27,038,488 (-)NCBI
Celera1524,579,404 - 24,582,958 (-)NCBICelera
Cytogenetic Map15p14NCBI
RNASE9
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381420,556,093 - 20,560,931 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1420,556,093 - 20,560,931 (-)EnsemblGRCh38hg38GRCh38
GRCh371421,024,252 - 21,029,090 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361420,094,092 - 20,098,930 (-)NCBINCBI36Build 36hg18NCBI36
Build 341420,094,450 - 20,095,068NCBI
Celera14885,131 - 889,969 (-)NCBICelera
Cytogenetic Map14q11.2NCBI
HuRef141,145,214 - 1,150,052 (-)NCBIHuRef
CHM1_11421,026,277 - 21,031,115 (-)NCBICHM1_1
T2T-CHM13v2.01414,753,225 - 14,758,063 (-)NCBIT2T-CHM13v2.0
Rnase9
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391451,275,916 - 51,279,360 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1451,275,916 - 51,279,326 (-)EnsemblGRCm39 Ensembl
GRCm381451,038,459 - 51,041,903 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1451,038,459 - 51,041,869 (-)EnsemblGRCm38mm10GRCm38
MGSCv371451,658,134 - 51,661,542 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361449,960,410 - 49,963,820 (-)NCBIMGSCv36mm8
Celera1447,315,783 - 47,319,194 (-)NCBICelera
Cytogenetic Map14C1NCBI
Rnase9
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049555501,371,792 - 1,372,355 (-)NCBIChiLan1.0ChiLan1.0
RNASE9
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11419,478,278 - 19,483,105 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1419,478,278 - 19,480,838 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0141,421,047 - 1,425,872 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
RNASE9
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11517,875,825 - 17,878,702 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1518,358,311 - 18,361,196 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01518,132,531 - 18,135,444 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1518,132,899 - 18,133,495 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11517,814,769 - 17,817,653 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01517,870,174 - 17,873,064 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01517,998,973 - 18,001,857 (-)NCBIUU_Cfam_GSD_1.0
Rnase9
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864077,814,720 - 77,820,025 (-)NCBIHiC_Itri_2
RNASE9
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1778,341,091 - 78,367,308 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
RNASE9
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12921,078,437 - 21,083,863 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2921,078,799 - 21,079,425 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605925,345,886 - 25,351,312 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rnase9
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248254,607,826 - 4,608,389 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Rnase9
26 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:86
Count of miRNA genes:74
Interacting mature miRNAs:82
Transcripts:ENSRNOT00000040616
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
1354657Despr13Despair related QTL 130.0022locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)15129912054Rat
8552920Pigfal8Plasma insulin-like growth factor 1 level QTL 83blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)15134723002Rat
8694361Abfw6Abdominal fat weight QTL 610.20.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)15134723002Rat
9589149Insul29Insulin level QTL 299.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)15134723002Rat
731170Pur3Proteinuria QTL 32.30.0005urine protein amount (VT:0005160)urine protein excretion rate (CMO:0000759)15141686771Rat
1641887Alcrsp14Alcohol response QTL 14response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)15142356671Rat
2298549Neuinf12Neuroinflammation QTL 123.5nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)15155302115Rat
10401805Kidm51Kidney mass QTL 51kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1530632945306329Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15226636846921453Rat
1582251Gluco24Glucose level QTL 243.20.0008blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)15553075650530756Rat
631273Lecl2Lens clarity QTL 20.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)151059608955596089Rat
2300167Bmd63Bone mineral density QTL 635.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
2300173Bmd62Bone mineral density QTL 6212.80.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
2293688Bss29Bone structure and strength QTL 295.310.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)151111114256111142Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151249614165205939Rat
5685002Bss103Bone structure and strength QTL 1032.8tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)151448116528469888Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151672552880672115Rat
1331729Rf42Renal function QTL 423.071kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)151736289773690657Rat
631550Bw7Body weight QTL 73.6body mass (VT:0001259)body weight (CMO:0000012)151985656634924750Rat
2324620Coatc3Coat color QTL 3coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)151985656646187442Rat
10054130Srcrt8Stress Responsive Cort QTL 82.180.0085blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)152211793367117933Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)152280624098288169Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)152280624098288169Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)152280624098288169Rat


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
Low 2 7 2 15 2 2 8
Below cutoff 1 22 16 4 16 2 2 9 9 10 3 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000040616   ⟹   ENSRNOP00000042519
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1524,259,525 - 24,263,079 (-)Ensembl
Rnor_6.0 Ensembl1527,964,804 - 27,968,358 (-)Ensembl
RefSeq Acc Id: NM_001008561   ⟹   NP_001008561
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21524,259,525 - 24,263,079 (-)NCBI
Rnor_6.01527,964,804 - 27,968,358 (-)NCBI
Rnor_5.01531,797,573 - 31,801,127 (-)NCBI
RGSC_v3.41527,019,251 - 27,022,788 (-)RGD
Celera1524,579,404 - 24,582,958 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001008561 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAQ73515 (Get FASTA)   NCBI Sequence Viewer  
  AAV87198 (Get FASTA)   NCBI Sequence Viewer  
  EDL88434 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001008561   ⟸   NM_001008561
- Peptide Label: precursor
- UniProtKB: Q5QJV4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000042519   ⟸   ENSRNOT00000040616
Protein Domains
Ribonuclease A-domain

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5QJV4-F1-model_v2 AlphaFold Q5QJV4 1-182 view protein structure

Transcriptome

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

Promoters
RGD ID:13699628
Promoter ID:EPDNEW_R10150
Type:single initiation site
Name:Rnase9_1
Description:ribonuclease A family member 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_6.01527,968,380 - 27,968,440EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1359501 AgrOrtholog
BioCyc Gene G2FUF-14042 BioCyc
Ensembl Genes ENSRNOG00000029516 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000042519 ENTREZGENE
  ENSRNOP00000042519.2 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000040616 ENTREZGENE
  ENSRNOT00000040616.4 UniProtKB/TrEMBL
Gene3D-CATH 3.10.130.10 UniProtKB/TrEMBL
InterPro RNaseA UniProtKB/TrEMBL
  RNaseA-like_dom_sf UniProtKB/TrEMBL
  RNaseA_domain UniProtKB/TrEMBL
KEGG Report rno:364301 UniProtKB/TrEMBL
NCBI Gene 364301 ENTREZGENE
PANTHER PTHR11437:SF14 UniProtKB/TrEMBL
  RNaseA UniProtKB/TrEMBL
Pfam RnaseA UniProtKB/TrEMBL
PhenoGen Rnase9 PhenoGen
Superfamily-SCOP RNaseA UniProtKB/TrEMBL
UniProt Q5QJV4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-01-27 Rnase9  ribonuclease A family member 9  Rnase9  ribonuclease, RNase A family, 9 (non-active)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Rnase9  ribonuclease, RNase A family, 9 (non-active)    ribonuclease A family, member 9  Name updated 1299863 APPROVED
2005-07-29 Rnase9  ribonuclease A family, member 9      Symbol and Name status set to provisional 70820 PROVISIONAL