Rnase13 (ribonuclease A family member 13) - Rat Genome Database

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Gene: Rnase13 (ribonuclease A family member 13) Rattus norvegicus
Analyze
Symbol: Rnase13
Name: ribonuclease A family member 13
RGD ID: 1359386
Description: Predicted to enable nucleic acid binding activity. Predicted to be involved in defense response to Gram-positive bacterium. Predicted to be located in extracellular region. Orthologous to human RNASE13 (ribonuclease A family member 13 (inactive)); INTERACTS WITH 1-naphthyl isothiocyanate; aflatoxin B1; Cuprizon.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: probable inactive ribonuclease-like protein 13; ribonuclease 13; ribonuclease, RNase A family, 13 (non-active); ribonuclease-like protein 13
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81527,091,707 - 27,092,168 (-)NCBIGRCr8
mRatBN7.21524,618,209 - 24,618,670 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1524,618,209 - 24,618,670 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1527,389,268 - 27,389,729 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01528,344,994 - 28,345,455 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01526,597,938 - 26,598,399 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01528,322,851 - 28,325,875 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1528,323,046 - 28,323,507 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01532,135,818 - 32,138,880 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41527,355,778 - 27,356,239 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11527,371,477 - 27,371,939 (-)NCBI
Celera1524,923,666 - 24,924,105 (-)NCBICelera
Cytogenetic Map15p14NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Rnase13RatBrain-Lung-Thyroid Syndrome  ISORGD:13443908554872ClinVar Annotator: match by term: Brain-lung-thyroid syndromeClinVarPMID:25741868
Rnase13Ratpurine nucleoside phosphorylase deficiency  ISORGD:13443908554872ClinVar Annotator: match by term: Purine-nucleoside phosphorylase deficiencyClinVarPMID:24767876|PMID:28492532

1 to 12 of 12 rows

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Rnase13Rat1,2-dichloroethane increases expressionISORGD:15501876480464ethylene dichloride results in increased expression of RNASE13 mRNACTDPMID:28960355
Rnase13Rat1-naphthyl isothiocyanate decreases expressionEXP 64804641-Naphthylisothiocyanate results in decreased expression of RNASE13 mRNACTDPMID:30723492
Rnase13Rataflatoxin B1 decreases expressionEXP 6480464Aflatoxin B1 results in decreased expression of RNASE13 mRNACTDPMID:33354967
Rnase13Ratarsane affects methylationISORGD:13443906480464Arsenic affects the methylation of RNASE13 geneCTDPMID:25304211
Rnase13Ratarsenic atom affects methylationISORGD:13443906480464Arsenic affects the methylation of RNASE13 geneCTDPMID:25304211
Rnase13Ratbenzo[a]pyrene multiple interactionsISORGD:15501876480464Benzo(a)pyrene promotes the reaction [AHR protein binds to RNASE13 promoter]CTDPMID:19654925
Rnase13Ratbenzo[a]pyrene increases methylationISORGD:13443906480464Benzo(a)pyrene results in increased methylation of RNASE13 3' UTR; Benzo(a)pyrene results in increased methylation of more ...CTDPMID:27901495
Rnase13RatCuprizon increases expressionEXP 6480464Cuprizone results in increased expression of RNASE13 mRNACTDPMID:27523638
Rnase13Ratperfluorooctane-1-sulfonic acid multiple interactionsISORGD:15501876480464[perfluorooctane sulfonic acid co-treated with Pectins] results in increased expression of RNASE13 mRNACTDPMID:36331819
Rnase13Ratresveratrol multiple interactionsISORGD:13443906480464[Plant Extracts co-treated with Resveratrol] results in decreased expression of RNASE13 mRNACTDPMID:23557933
Rnase13Ratthioacetamide decreases expressionEXP 6480464Thioacetamide results in decreased expression of RNASE13 mRNACTDPMID:23411599|PMID:34492290
Rnase13Rattrichloroethene decreases expressionEXP 6480464Trichloroethylene results in decreased expression of RNASE13 mRNACTDPMID:33387578

1 to 12 of 12 rows

Biological Process

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Rnase13Ratdefense response to Gram-positive bacterium involved_inIBAMGI:1925666|MGI:88022|PANTHER:PTN008517922|UniProtKB:P03950|UniProtKB:P12724|UniProtKB:P30374|UniProtKB:Q8TDE3|UniProtKB:Q93091|UniProtKB:Q9H1E1|ZFIN:ZDB-GENE-050208-420|ZFIN:ZDB-GENE-050809-5|ZFIN:ZDB-GENE-070713-71600115GO_REF:0000033GO_CentralGO_REF:0000033

Cellular Component

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Rnase13Ratextracellular region located_inIEAUniProtKB-SubCell:SL-02431600115GO_REF:0000044UniProtGO_REF:0000044
Rnase13Ratextracellular region located_inIEAUniProtKB-KW:KW-09641600115GO_REF:0000043UniProtGO_REF:0000043

Molecular Function

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Rnase13Ratnucleic acid binding enablesIEAInterPro:IPR0014271600115GO_REF:0000002InterProGO_REF:0000002
Rnase13RatRNA nuclease activity NOT|enablesIKR 1556637PMID:15676279GO_Central 


#
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. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions


Rnase13
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81527,091,707 - 27,092,168 (-)NCBIGRCr8
mRatBN7.21524,618,209 - 24,618,670 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1524,618,209 - 24,618,670 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1527,389,268 - 27,389,729 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01528,344,994 - 28,345,455 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01526,597,938 - 26,598,399 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01528,322,851 - 28,325,875 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1528,323,046 - 28,323,507 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01532,135,818 - 32,138,880 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41527,355,778 - 27,356,239 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11527,371,477 - 27,371,939 (-)NCBI
Celera1524,923,666 - 24,924,105 (-)NCBICelera
Cytogenetic Map15p14NCBI
RNASE13
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381421,032,818 - 21,034,807 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1421,032,818 - 21,034,807 (-)EnsemblGRCh38hg38GRCh38
GRCh371421,500,977 - 21,502,966 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361420,570,819 - 20,572,784 (-)NCBINCBI36Build 36hg18NCBI36
Build 341420,571,818 - 20,572,287NCBI
Celera141,361,842 - 1,363,807 (-)NCBICelera
Cytogenetic Map14q11.2NCBI
HuRef141,621,919 - 1,623,884 (-)NCBIHuRef
CHM1_11421,503,089 - 21,505,054 (-)NCBICHM1_1
T2T-CHM13v2.01415,230,221 - 15,232,210 (-)NCBIT2T-CHM13v2.0
Rnase13
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391452,158,817 - 52,160,734 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1452,158,819 - 52,160,230 (-)EnsemblGRCm39 Ensembl
GRCm381451,921,365 - 51,923,277 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1451,921,362 - 51,922,773 (-)EnsemblGRCm38mm10GRCm38
MGSCv371452,541,835 - 52,542,448 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361450,844,170 - 50,844,631 (-)NCBIMGSCv36mm8
Celera1448,907,439 - 48,908,052 (-)NCBICelera
Cytogenetic Map14C2NCBI
cM Map1426.73NCBI
Rnase13
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555501,786,550 - 1,800,191 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555501,786,550 - 1,800,191 (-)NCBIChiLan1.0ChiLan1.0
RNASE13
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21522,484,384 - 22,486,373 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11421,700,871 - 21,702,860 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0141,847,810 - 1,849,797 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11419,929,716 - 19,931,681 (-)NCBIpanpan1.1PanPan1.1panPan2
RNASE13
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11518,122,227 - 18,123,978 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1518,122,946 - 18,123,719 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1518,607,655 - 18,609,576 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01518,382,969 - 18,384,897 (-)NCBIROS_Cfam_1.0
UNSW_CanFamBas_1.01518,120,279 - 18,122,201 (-)NCBIUNSW_CanFamBas_1.0
Rnase13
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864032,324,079 - 32,335,943 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936880233,977 - 234,447 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936880233,200 - 245,256 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RNASE13
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1778,096,249 - 78,107,768 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
RNASE13
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12921,505,792 - 21,520,610 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2921,507,546 - 21,508,016 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605924,926,969 - 24,929,313 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rnase13
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248257,025,342 - 7,025,803 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248257,024,168 - 7,026,096 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

.

.
Variants in Rnase13
9 total Variants

Predicted Target Of
Summary Value
Count of predictions:39
Count of miRNA genes:38
Interacting mature miRNAs:39
Transcripts:ENSRNOT00000060539
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.


1 to 10 of 14 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
1641913Colcr2Colorectal carcinoma resistance QTL 26.570.0197intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)15231575947315759Rat
5684946Bss98Bone structure and strength QTL 983.90.0026tibia strength trait (VT:1000284)tibia ultimate force (CMO:0001734)15139411584Rat
1641887Alcrsp14Alcohol response QTL 14response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)15144836456Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15231575953331089Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)1525285835104695021Rat
2324620Coatc3Coat color QTL 3coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)152233635152597086Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)1525285835104695021Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151915576287086765Rat
10401805Kidm51Kidney mass QTL 51kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)15278592347785923Rat
1354657Despr13Despair related QTL 130.0022locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)15132342855Rat

1 to 10 of 14 rows



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
8 11 18 60 62 66 38 13 38 6 130 49 45 27 43 28



Ensembl Acc Id: ENSRNOT00000060539   ⟹   ENSRNOP00000057279
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1524,618,209 - 24,618,670 (-)Ensembl
Rnor_6.0 Ensembl1528,323,046 - 28,323,507 (-)Ensembl
RefSeq Acc Id: NM_001012231   ⟹   NP_001012231
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81527,091,707 - 27,092,168 (-)NCBI
mRatBN7.21524,618,209 - 24,618,670 (-)NCBI
Rnor_6.01528,323,046 - 28,323,507 (-)NCBI
Rnor_5.01532,135,818 - 32,138,880 (-)NCBI
RGSC_v3.41527,355,778 - 27,356,239 (-)RGD
Celera1524,923,666 - 24,924,105 (-)RGD
Sequence:
Protein RefSeqs NP_001012231 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAV87202 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000057279
GenBank Protein Q5GAL7 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001012231   ⟸   NM_001012231
- Peptide Label: precursor
- UniProtKB: Q5GAL7 (UniProtKB/Swiss-Prot),   R9PY04 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000057279   ⟸   ENSRNOT00000060539
Ribonuclease A-domain

Name Modeler Protein Id AA Range Protein Structure
AF-Q5GAL7-F1-model_v2 AlphaFold Q5GAL7 1-153 view protein structure


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



1 to 19 of 19 rows
Database
Acc Id
Source(s)
BioCyc Gene G2FUF-14000 BioCyc
Ensembl Genes ENSRNOG00000039500 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000060539 ENTREZGENE
Gene3D-CATH 3.10.130.10 UniProtKB/Swiss-Prot
InterPro RNaseA UniProtKB/Swiss-Prot
  RNaseA-like_dom_sf UniProtKB/Swiss-Prot
  RNaseA_domain UniProtKB/Swiss-Prot
KEGG Report rno:497194 UniProtKB/Swiss-Prot
NCBI Gene 497194 ENTREZGENE
PANTHER PTHR11437 UniProtKB/Swiss-Prot
  PTHR11437:SF11 UniProtKB/Swiss-Prot
Pfam RnaseA UniProtKB/Swiss-Prot
PhenoGen Rnase13 PhenoGen
RatGTEx ENSRNOG00000039500 RatGTEx
SMART RNAse_Pc UniProtKB/Swiss-Prot
Superfamily-SCOP SSF54076 UniProtKB/Swiss-Prot
UniProt Q5GAL7 ENTREZGENE
  R9PY04 ENTREZGENE, UniProtKB/TrEMBL
  RNS13_RAT UniProtKB/Swiss-Prot
1 to 19 of 19 rows


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-01-27 Rnase13  ribonuclease A family member 13  Rnase13  ribonuclease, RNase A family, 13 (non-active)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-07 Rnase13  ribonuclease, RNase A family, 13 (non-active)  Rnase13  ribonuclease 13  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 Rnase13  ribonuclease 13  LOC686754  similar to ribonuclease 13  Data merged from RGD:1593708 1643240 APPROVED
2006-11-20 LOC686754  similar to ribonuclease 13      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-12-06 Rnase13  ribonuclease 13      Symbol and Name updated 1559027 APPROVED
2005-07-29 Rnase13  ribonuclease 13      Symbol and Name status set to provisional 70820 PROVISIONAL