Rnaseh2c (ribonuclease H2, subunit C) - Rat Genome Database

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Gene: Rnaseh2c (ribonuclease H2, subunit C) Mus musculus
Analyze
Symbol: Rnaseh2c
Name: ribonuclease H2, subunit C
RGD ID: 1332339
MGI Page MGI
Description: Predicted to be involved in RNA catabolic process. Part of ribonuclease H2 complex. Is expressed in several structures, including hemolymphoid system gland; retina nuclear layer; skin; telencephalon; and testis. Human ortholog(s) of this gene implicated in Aicardi-Goutieres syndrome. Orthologous to human RNASEH2C (ribonuclease H2 subunit C).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 1500026D16Rik; AYP1; ribonuclease H2 subunit C; ribonuclease HI subunit C; RNase H2 subunit C
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39195,651,901 - 5,652,987 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl195,651,901 - 5,657,047 (+)EnsemblGRCm39 Ensembl
GRCm38195,601,873 - 5,602,959 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl195,601,873 - 5,607,019 (+)EnsemblGRCm38mm10GRCm38
MGSCv37195,601,873 - 5,602,959 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36195,601,873 - 5,602,959 (+)NCBIMGSCv36mm8
Celera195,471,843 - 5,472,929 (+)NCBICelera
Cytogenetic Map19ANCBI
cM Map194.34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
nucleus  (IEA)
ribonuclease H2 complex  (IBA,IDA,IPI,ISO,ISS)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Electronic Transfer of Homolog Data MGD and Homologene mouse data transfer
2. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
3. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
4. Mouse MP Annotation Import Pipeline RGD automated import pipeline
5. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:11042159   PMID:11076861   PMID:11125038   PMID:11217851   PMID:11544199   PMID:12466851   PMID:12477932   PMID:14610273   PMID:15226823   PMID:15489334  
PMID:16141072   PMID:16141073   PMID:19923215   PMID:21677750   PMID:21873635   PMID:22579044   PMID:22802351   PMID:23603115   PMID:23744109   PMID:30973865   PMID:31125342   PMID:32325033  
PMID:34321999   PMID:38355793  


Genomics

Comparative Map Data
Rnaseh2c
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39195,651,901 - 5,652,987 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl195,651,901 - 5,657,047 (+)EnsemblGRCm39 Ensembl
GRCm38195,601,873 - 5,602,959 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl195,601,873 - 5,607,019 (+)EnsemblGRCm38mm10GRCm38
MGSCv37195,601,873 - 5,602,959 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36195,601,873 - 5,602,959 (+)NCBIMGSCv36mm8
Celera195,471,843 - 5,472,929 (+)NCBICelera
Cytogenetic Map19ANCBI
cM Map194.34NCBI
RNASEH2C
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381165,717,673 - 65,720,798 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1165,714,005 - 65,720,818 (-)EnsemblGRCh38hg38GRCh38
GRCh371165,485,144 - 65,488,269 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361165,241,720 - 65,244,985 (-)NCBINCBI36Build 36hg18NCBI36
Celera1162,812,157 - 62,815,292 (-)NCBICelera
Cytogenetic Map11q13.1NCBI
HuRef1161,811,997 - 61,815,262 (-)NCBIHuRef
CHM1_11165,369,060 - 65,372,325 (-)NCBICHM1_1
T2T-CHM13v2.01165,711,831 - 65,714,956 (-)NCBIT2T-CHM13v2.0
Rnaseh2c
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81212,323,916 - 212,325,011 (+)NCBIGRCr8
mRatBN7.21202,894,626 - 202,895,675 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1202,894,643 - 202,897,516 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1211,246,936 - 211,247,985 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01218,340,018 - 218,341,067 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01211,031,069 - 211,032,118 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01220,966,626 - 220,967,717 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1220,966,655 - 220,967,825 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01227,897,678 - 227,898,767 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41208,232,298 - 208,233,903 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1200,430,341 - 200,431,432 (+)NCBICelera
Cytogenetic Map1q43NCBI
Rnaseh2c
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542219,556,396 - 19,557,307 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542219,556,129 - 19,557,416 (+)NCBIChiLan1.0ChiLan1.0
RNASEH2C
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2966,947,333 - 66,954,131 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11167,992,131 - 67,993,361 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01161,076,731 - 61,079,994 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11164,412,745 - 64,413,949 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1164,411,804 - 64,413,819 (-)Ensemblpanpan1.1panPan2
RNASEH2C
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11851,498,282 - 51,501,844 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1851,498,308 - 51,499,541 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1850,106,789 - 50,110,359 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01852,536,418 - 52,539,985 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1852,536,446 - 52,537,679 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11851,635,921 - 51,639,491 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01851,210,549 - 51,214,119 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01852,000,004 - 52,003,571 (+)NCBIUU_Cfam_GSD_1.0
Rnaseh2c
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049477,323,991 - 7,325,104 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365993,766,242 - 3,767,345 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365993,766,330 - 3,767,453 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RNASEH2C
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl26,563,091 - 6,564,274 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.126,563,093 - 6,564,281 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.225,667,133 - 5,668,321 (+)NCBISscrofa10.2Sscrofa10.2susScr3
RNASEH2C
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.118,526,761 - 8,535,984 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl18,526,788 - 8,528,027 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666038105,819,842 - 105,826,376 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rnaseh2c
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476720,667,418 - 20,668,490 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476720,667,401 - 20,668,490 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Rnaseh2c
28 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:794
Count of miRNA genes:331
Interacting mature miRNAs:373
Transcripts:ENSMUST00000025864, ENSMUST00000127071, ENSMUST00000133953, ENSMUST00000136226, ENSMUST00000155639
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4142302Nstr1_mnerve sheath tumor resistance QTL 1 (mouse)Not determined19122371338Mouse
1301271Datd_mdopamine transporter density (mouse)Not determined19132340234Mouse
1300923Bits4_mbitterness sensitivity 4 (mouse)Not determined19332321637323348Mouse
11039522Tbbr4_mTrypanosoma brucei brucei response 4 (mouse)19531332639313470Mouse
25394536Skmw86_mskeletal muscle weight 86, TA (mouse)1950648178957825Mouse
4142161Drinksac2_mdrink saccharin 2 (mouse)Not determined120695286Mouse
1357819Tgct2_mtesticular germ cell tumor 2 (mouse)Not determined19332855120539663Mouse
4142406Pbctlp1_mperipheral blood cytotoxic T lymphocyte percentage 1 (mouse)Not determined132875174Mouse
1300776Lfp3_mlong free running period 3 (mouse)Not determined19120328703Mouse
1300904Chab5_mcholesterol absorption 5 (mouse)Not determined19165376435653927Mouse
26884385Skwq14_mskull length QTL 14, 16 week (mouse)19325000035877400Mouse
1301800Faq10_mfluctuating asymmetry QTL 10 (mouse)Not determined19332321637323348Mouse
1300591Pas3_mpulmonary adenoma susceptibility 3 (mouse)Not determined19332321637323348Mouse
1302126Skull26_mskull morphology 26 (mouse)Not determined19332321637323348Mouse

Markers in Region
AI839539  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38195,603,031 - 5,603,136UniSTSGRCm38
MGSCv37195,603,031 - 5,603,136UniSTSGRCm37
Celera195,473,001 - 5,473,106UniSTS
Cytogenetic Map19AUniSTS
Whitehead/MRC_RH1954.9UniSTS


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000025864   ⟹   ENSMUSP00000025864
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl195,651,901 - 5,653,467 (+)Ensembl
GRCm38.p6 Ensembl195,601,873 - 5,603,439 (+)Ensembl
Ensembl Acc Id: ENSMUST00000127071
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl195,651,915 - 5,652,895 (+)Ensembl
GRCm38.p6 Ensembl195,601,887 - 5,602,867 (+)Ensembl
Ensembl Acc Id: ENSMUST00000133953
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl195,652,438 - 5,652,962 (+)Ensembl
GRCm38.p6 Ensembl195,602,410 - 5,602,934 (+)Ensembl
Ensembl Acc Id: ENSMUST00000136226   ⟹   ENSMUSP00000117615
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl195,652,263 - 5,652,966 (+)Ensembl
GRCm38.p6 Ensembl195,602,235 - 5,602,938 (+)Ensembl
Ensembl Acc Id: ENSMUST00000155639   ⟹   ENSMUSP00000158448
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl195,652,003 - 5,652,960 (+)Ensembl
GRCm38.p6 Ensembl195,601,975 - 5,602,932 (+)Ensembl
Ensembl Acc Id: ENSMUST00000236461   ⟹   ENSMUSP00000157589
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl195,651,964 - 5,657,047 (+)Ensembl
GRCm38.p6 Ensembl195,601,936 - 5,607,019 (+)Ensembl
RefSeq Acc Id: NM_026616   ⟹   NP_080892
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39195,651,901 - 5,652,987 (+)NCBI
GRCm38195,601,873 - 5,602,959 (+)ENTREZGENE
MGSCv37195,601,873 - 5,602,959 (+)RGD
Celera195,471,843 - 5,472,929 (+)RGD
cM Map19 ENTREZGENE
Sequence:
RefSeq Acc Id: NP_080892   ⟸   NM_026616
- UniProtKB: Q8R1N2 (UniProtKB/Swiss-Prot),   Q9CQ18 (UniProtKB/Swiss-Prot),   A0A494B9C7 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSMUSP00000025864   ⟸   ENSMUST00000025864
Ensembl Acc Id: ENSMUSP00000157589   ⟸   ENSMUST00000236461
Ensembl Acc Id: ENSMUSP00000117615   ⟸   ENSMUST00000136226
Ensembl Acc Id: ENSMUSP00000158448   ⟸   ENSMUST00000155639

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9CQ18-F1-model_v2 AlphaFold Q9CQ18 1-166 view protein structure

Promoters
RGD ID:6830375
Promoter ID:MM_KWN:26095
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day1,   3T3L1_Day3,   3T3L1_Day4,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:OTTMUST00000048488,   OTTMUST00000048489,   OTTMUST00000048490,   OTTMUST00000085868,   OTTMUST00000085870
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36195,601,866 - 5,602,467 (+)MPROMDB
RGD ID:13678550
Promoter ID:EPDNEW_M23424
Type:initiation region
Name:Rnaseh2c_1
Description:Mus musculus ribonuclease H2, subunit C , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38195,601,871 - 5,601,931EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1915459 AgrOrtholog
Ensembl Genes ENSMUSG00000024925 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000025864 ENTREZGENE
  ENSMUST00000025864.11 UniProtKB/Swiss-Prot
  ENSMUST00000136226.2 UniProtKB/TrEMBL
  ENSMUST00000155639.2 UniProtKB/TrEMBL
  ENSMUST00000236461.2 UniProtKB/TrEMBL
Gene3D-CATH 2.40.128.680 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro RNase_H2_subunit_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RNase_H2_suC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:68209 UniProtKB/Swiss-Prot
MGD MGI:1915459 ENTREZGENE
NCBI Gene 68209 ENTREZGENE
PANTHER RIBONUCLEASE H2 SUBUNIT C UniProtKB/Swiss-Prot
  RIBONUCLEASE H2 SUBUNIT C UniProtKB/Swiss-Prot
  RIBONUCLEASE H2 SUBUNIT C UniProtKB/TrEMBL
  RIBONUCLEASE H2 SUBUNIT C UniProtKB/TrEMBL
Pfam RNase_H2_suC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Rnaseh2c PhenoGen
UniProt A0A494B9C7 ENTREZGENE, UniProtKB/TrEMBL
  A0A494BBB6_MOUSE UniProtKB/TrEMBL
  F6ZDT4_MOUSE UniProtKB/TrEMBL
  Q8R1N2 ENTREZGENE
  Q9CQ18 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q8R1N2 UniProtKB/Swiss-Prot