Zc3h12a (zinc finger CCCH-type containing 12A) - Rat Genome Database

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Gene: Zc3h12a (zinc finger CCCH-type containing 12A) Ictidomys tridecemlineatus
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Symbol: Zc3h12a
Name: zinc finger CCCH-type containing 12A
RGD ID: 12612928
Description: ENCODES a protein that exhibits cysteine-type deubiquitinase activity (ortholog); INVOLVED IN protein deubiquitination (ortholog); ASSOCIATED WITH Acute Experimental Autoimmune Encephalomyelitis (ortholog); Acute Lung Injury (ortholog); Arterial Occlusive Diseases (ortholog); FOUND IN cytoplasm (inferred); cytoplasmic ribonucleoprotein granule (inferred); cytoskeleton (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: endoribonuclease ZC3H12A; ribonuclease ZC3H12A
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505853,888,781 - 53,897,730 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647419,714,153 - 19,722,528 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647419,714,145 - 19,722,512 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
3'-UTR-mediated mRNA destabilization  (IEA)
cellular response to chemokine  (IEA)
cellular response to glucose starvation  (IEA)
cellular response to ionomycin  (IEA)
cellular response to lipopolysaccharide  (IEA)
cellular response to oxidative stress  (IEA)
cellular response to sodium arsenite  (IEA)
cellular response to tumor necrosis factor  (IEA)
cellular response to virus  (IEA)
DNA damage response  (IEA)
immune response-activating signaling pathway  (IEA)
miRNA catabolic process  (IEA)
mRNA catabolic process  (IEA)
negative regulation by host of viral genome replication  (IEA)
negative regulation of canonical NF-kappaB signal transduction  (IEA)
negative regulation of cardiac muscle contraction  (IEA)
negative regulation of cytokine production involved in inflammatory response  (IEA)
negative regulation of gene expression  (IEA)
negative regulation of interleukin-1 beta production  (IEA)
negative regulation of interleukin-6 production  (IEA)
negative regulation of muscle cell apoptotic process  (IEA)
negative regulation of nitric oxide biosynthetic process  (IEA)
negative regulation of non-canonical NF-kappaB signal transduction  (IEA)
negative regulation of protein phosphorylation  (IEA)
negative regulation of T-helper 17 cell differentiation  (IEA)
negative regulation of tumor necrosis factor production  (IEA)
negative regulation of type II interferon production  (IEA)
positive regulation of angiogenesis  (IEA)
positive regulation of autophagy  (IEA)
positive regulation of defense response to virus by host  (IEA)
positive regulation of endothelial cell migration  (IEA)
positive regulation of execution phase of apoptosis  (IEA)
positive regulation of fat cell differentiation  (IEA)
positive regulation of gene expression  (IEA)
positive regulation of lipid storage  (IEA)
positive regulation of miRNA catabolic process  (IEA)
positive regulation of mRNA catabolic process  (IEA)
positive regulation of p38MAPK cascade  (IEA)
positive regulation of protein deubiquitination  (IEA)
positive regulation of protein import into nucleus  (IEA)
positive regulation of reactive oxygen species metabolic process  (IEA)
positive regulation of transcription by RNA polymerase II  (IEA)
protein complex oligomerization  (IEA)
protein deubiquitination  (ISO)
regulation of gene expression  (IEA)
T cell receptor signaling pathway  (IEA)

Cellular Component

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
Zc3h12a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505853,888,781 - 53,897,730 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647419,714,153 - 19,722,528 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647419,714,145 - 19,722,512 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ZC3H12A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38137,474,580 - 37,484,377 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl137,474,580 - 37,484,377 (+)EnsemblGRCh38hg38GRCh38
GRCh37137,940,181 - 37,949,978 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36137,712,706 - 37,722,565 (+)NCBINCBI36Build 36hg18NCBI36
Celera136,218,067 - 36,227,926 (+)NCBICelera
Cytogenetic Map1p34.3NCBI
HuRef136,057,283 - 36,067,022 (+)NCBIHuRef
CHM1_1138,056,246 - 38,066,105 (+)NCBICHM1_1
T2T-CHM13v2.0137,339,334 - 37,349,131 (+)NCBIT2T-CHM13v2.0
Zc3h12a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394125,012,207 - 125,021,674 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4125,012,216 - 125,021,633 (-)EnsemblGRCm39 Ensembl
GRCm384125,118,414 - 125,127,881 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4125,118,423 - 125,127,840 (-)EnsemblGRCm38mm10GRCm38
MGSCv374124,795,658 - 124,805,125 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv364124,620,727 - 124,630,144 (-)NCBIMGSCv36mm8
Celera4123,439,822 - 123,449,288 (-)NCBICelera
Cytogenetic Map4D2.2NCBI
cM Map458.1NCBI
Zc3h12a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85142,661,193 - 142,670,051 (-)NCBIGRCr8
mRatBN7.25137,376,562 - 137,385,351 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5137,376,564 - 137,385,351 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5140,080,427 - 140,089,206 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05141,850,422 - 141,859,201 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05141,857,598 - 141,866,378 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05143,111,342 - 143,120,131 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5143,111,074 - 143,120,165 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05146,878,968 - 146,887,760 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45144,457,753 - 144,467,275 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.15144,468,090 - 144,476,486 (-)NCBI
Celera5135,894,447 - 135,903,150 (-)NCBICelera
Cytogenetic Map5q36NCBI
Zc3h12a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545215,305,775 - 15,314,959 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495545215,306,398 - 15,314,959 (+)NCBIChiLan1.0ChiLan1.0
ZC3H12A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21189,358,963 - 189,374,172 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11188,487,843 - 188,496,719 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0136,743,341 - 36,753,261 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1138,093,036 - 38,103,556 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl138,093,917 - 38,103,556 (+)Ensemblpanpan1.1panPan2
ZC3H12A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1154,972,369 - 4,984,218 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl154,972,956 - 4,980,371 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha155,219,328 - 5,230,693 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0155,105,439 - 5,116,772 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl155,105,420 - 5,113,966 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1154,965,670 - 4,977,036 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0155,032,089 - 5,043,421 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0155,047,843 - 5,059,188 (-)NCBIUU_Cfam_GSD_1.0
ZC3H12A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl693,541,334 - 93,551,193 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1693,541,334 - 93,551,200 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
ZC3H12A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12095,388,469 - 95,398,305 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2095,388,477 - 95,397,960 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603321,417,693 - 21,427,581 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Zc3h12a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476420,224,906 - 20,234,629 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476420,224,919 - 20,234,108 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_005317828 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAESOR010000117 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

RefSeq Acc Id: ENSSTOT00000021708   ⟹   ENSSTOP00000021469
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_00493647419,714,153 - 19,722,528 (+)Ensembl
RefSeq Acc Id: XM_005317828   ⟹   XP_005317885
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440505853,888,781 - 53,897,730 (+)NCBI
SpeTri2.0NW_00493647419,714,145 - 19,722,512 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005317885 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000021469.1
GenBank Protein KAG3282768 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: XP_005317885   ⟸   XM_005317828
- UniProtKB: I3NAS2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSTOP00000021469   ⟸   ENSSTOT00000021708

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000026842 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000021708.2 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.11980 UniProtKB/TrEMBL
InterPro Rege-1_UBA-like UniProtKB/TrEMBL
  Regnase_1/ZC3H12_C UniProtKB/TrEMBL
  RNase_Zc3h12_NYN UniProtKB/TrEMBL
NCBI Gene Zc3h12a ENTREZGENE
PANTHER ENDORIBONUCLEASE ZC3H12A UniProtKB/TrEMBL
  N4BP1-RELATED UniProtKB/TrEMBL
Pfam Regnase_1_C UniProtKB/TrEMBL
  RNase_Zc3h12a UniProtKB/TrEMBL
  UBA_6 UniProtKB/TrEMBL
UniProt I3NAS2 ENTREZGENE, UniProtKB/TrEMBL