Zcchc18 (zinc finger, CCHC domain containing 18) - Rat Genome Database

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Gene: Zcchc18 (zinc finger, CCHC domain containing 18) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Zcchc18
Name: zinc finger, CCHC domain containing 18
RGD ID: 1591868
Description: Predicted to enable metal ion binding activity; INTERACTS WITH bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC102555659; LOC679126; similar to SMAD-interacting zinc finger protein 2; uncharacterized LOC102555659; zinc finger CCHC domain-containing protein 18
RGD Orthologs
Alliance Genes
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X105,111,894 - 105,115,096 (+)NCBIGRCr8
mRatBN7.2X100,319,620 - 100,322,822 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX100,319,497 - 100,322,820 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX102,449,779 - 102,452,985 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X105,948,451 - 105,951,653 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X103,517,626 - 103,520,828 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X107,632,672 - 107,633,569 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX107,634,150 - 107,635,321 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X107,513,884 - 107,515,459 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
CeleraX101,146,996 - 101,150,200 (+)NCBICelera
Cytogenetic MapXq32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
bisphenol A  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
nucleus  (IEA)

References

References - curated
# Reference Title Reference Citation
1. GOA pipeline RGD automated data pipeline
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:15632090  


Genomics

Variants

.
Variants in Zcchc18
13 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:110
Count of miRNA genes:90
Interacting mature miRNAs:99
Transcripts:ENSRNOT00000071361
Prediction methods:Microtar, Miranda, Pita, 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
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X14843113120568734Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X41052407146860749Rat
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX41304447112935181Rat
61431Cia19Collagen induced arthritis QTL 194.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X65612192120568734Rat
724551Glom1Glomerulus QTL 12.80.0004kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)X75294106120294106Rat
1598872Memor14Memory QTL 144.5exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X93956491138956491Rat

Markers in Region
RH131358  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X100,322,465 - 100,322,651 (+)MAPPERmRatBN7.2
Rnor_6.0X107,635,533 - 107,635,718NCBIRnor6.0
Rnor_5.0X107,515,103 - 107,515,288UniSTSRnor5.0
CeleraX101,149,842 - 101,150,027UniSTS
UniSTS:238086  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X100,321,902 - 100,322,179 (+)MAPPERmRatBN7.2
Rnor_6.0X107,634,970 - 107,635,246NCBIRnor6.0
Rnor_5.0X107,514,540 - 107,514,816UniSTSRnor5.0
CeleraX101,149,279 - 101,149,555UniSTS
UniSTS:479053  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X100,321,479 - 100,322,108 (+)MAPPERmRatBN7.2
Rnor_6.0X107,634,547 - 107,635,175NCBIRnor6.0
Rnor_5.0X107,514,117 - 107,514,745UniSTSRnor5.0
CeleraX101,148,856 - 101,149,484UniSTS


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 74 7
Low 3 24 26 10 19 10 3 3 22 34 11 3
Below cutoff 19 18 18 18 5 7 13 5

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000092013
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX100,319,497 - 100,322,820 (+)Ensembl
Rnor_6.0 EnsemblX107,634,150 - 107,635,321 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000118404   ⟹   ENSRNOP00000096916
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX100,319,497 - 100,322,820 (+)Ensembl
RefSeq Acc Id: NM_001402234   ⟹   NP_001389163
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X105,111,894 - 105,115,096 (+)NCBI
mRatBN7.2X100,319,620 - 100,322,822 (+)NCBI
RefSeq Acc Id: NM_001402235   ⟹   NP_001389164
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X105,111,894 - 105,115,096 (+)NCBI
mRatBN7.2X100,319,620 - 100,322,822 (+)NCBI
RefSeq Acc Id: NM_001402236   ⟹   NP_001389165
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X105,111,894 - 105,115,096 (+)NCBI
mRatBN7.2X100,319,620 - 100,322,822 (+)NCBI
RefSeq Acc Id: XM_039100643   ⟹   XP_038956571
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X105,111,902 - 105,115,090 (+)NCBI
mRatBN7.2X100,319,626 - 100,322,822 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: XP_038956571   ⟸   XM_039100643
- Peptide Label: isoform X1
- UniProtKB: A6KNV0 (UniProtKB/TrEMBL),   A0A8I6AJH1 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000096916   ⟸   ENSRNOT00000118404
RefSeq Acc Id: NP_001389164   ⟸   NM_001402235
- UniProtKB: A0A8I6AJH1 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001389165   ⟸   NM_001402236
- UniProtKB: A0A8I6AJH1 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001389163   ⟸   NM_001402234
- UniProtKB: A0A8I6AJH1 (UniProtKB/TrEMBL)
Protein Domains
Paraneoplastic antigen Ma-like C-terminal

Transcriptome

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


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSRNOG00000055939 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000092013 ENTREZGENE
  ENSRNOT00000092013.2 UniProtKB/TrEMBL
  ENSRNOT00000118404 ENTREZGENE
  ENSRNOT00000118404.1 UniProtKB/TrEMBL
InterPro PNMA UniProtKB/TrEMBL
  PNMA_C UniProtKB/TrEMBL
NCBI Gene Zcchc18 ENTREZGENE
PANTHER PTHR23095 UniProtKB/TrEMBL
  ZINC FINGER CCHC DOMAIN-CONTAINING PROTEIN 18 UniProtKB/TrEMBL
Pfam PNMA UniProtKB/TrEMBL
PhenoGen Zcchc18 PhenoGen
RatGTEx ENSRNOG00000055939 RatGTEx
UniProt A0A8I6AJH1 ENTREZGENE, UniProtKB/TrEMBL
  A6KNV0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Zcchc18  zinc finger, CCHC domain containing 18  LOC102555659  uncharacterized LOC102555659  Data merged from RGD:7648011 737654 PROVISIONAL
2013-12-18 LOC102555659  uncharacterized LOC102555659      Symbol and Name status set to provisional 70820 PROVISIONAL
2013-08-09 Zcchc18  zinc finger, CCHC domain containing 18  LOC679126  similar to SMAD-interacting zinc finger protein 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC679126  similar to SMAD-interacting zinc finger protein 2      Symbol and Name status set to provisional 70820 PROVISIONAL