Zcchc24 (zinc finger CCHC-type containing 24) - Rat Genome Database

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Gene: Zcchc24 (zinc finger CCHC-type containing 24) Rattus norvegicus
Analyze
Symbol: Zcchc24
Name: zinc finger CCHC-type containing 24
RGD ID: 1306164
Description: Predicted to enable nucleic acid binding activity and zinc ion binding activity. Orthologous to human ZCCHC24 (zinc finger CCHC-type containing 24); INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; 4,4'-diaminodiphenylmethane.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC361104; RGD1306164; similar to hypothetical protein FLJ90798; zinc finger CCHC domain-containing protein 24; zinc finger, CCHC domain containing 24
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
mRatBN7.2161,274,544 - 1,326,664 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl161,274,548 - 1,326,696 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx161,280,863 - 1,332,784 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0162,426,717 - 2,478,644 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0161,287,479 - 1,339,400 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0161,996,540 - 2,048,292 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl161,996,540 - 2,048,292 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0161,973,079 - 2,024,105 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4161,310,191 - 1,361,259 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1161,313,872 - 1,361,424 (-)NCBI
Celera161,251,464 - 1,303,173 (-)NCBICelera
Cytogenetic Map16p16NCBI
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

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. GOA pipeline RGD automated data pipeline
2. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:22681889  


Genomics

Comparative Map Data
Zcchc24
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2161,274,544 - 1,326,664 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl161,274,548 - 1,326,696 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx161,280,863 - 1,332,784 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0162,426,717 - 2,478,644 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0161,287,479 - 1,339,400 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0161,996,540 - 2,048,292 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl161,996,540 - 2,048,292 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0161,973,079 - 2,024,105 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4161,310,191 - 1,361,259 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1161,313,872 - 1,361,424 (-)NCBI
Celera161,251,464 - 1,303,173 (-)NCBICelera
Cytogenetic Map16p16NCBI
ZCCHC24
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381079,382,325 - 79,445,624 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1079,382,325 - 79,445,624 (-)EnsemblGRCh38hg38GRCh38
GRCh371081,142,081 - 81,205,380 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361080,812,087 - 80,875,389 (-)NCBINCBI36Build 36hg18NCBI36
Build 341080,812,090 - 80,875,386NCBI
Celera1074,428,216 - 74,491,539 (-)NCBICelera
Cytogenetic Map10q22.3NCBI
HuRef1075,137,141 - 75,200,449 (-)NCBIHuRef
CHM1_11081,425,046 - 81,488,051 (-)NCBICHM1_1
T2T-CHM13v2.01080,251,666 - 80,314,699 (-)NCBIT2T-CHM13v2.0
Zcchc24
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391425,712,068 - 25,769,496 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1425,712,066 - 25,769,463 (-)EnsemblGRCm39 Ensembl
GRCm381425,711,644 - 25,769,072 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1425,711,642 - 25,769,039 (-)EnsemblGRCm38mm10GRCm38
MGSCv371426,531,126 - 26,588,342 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361424,544,828 - 24,602,046 (-)NCBIMGSCv36mm8
Celera1422,035,954 - 22,087,110 (-)NCBICelera
Cytogenetic Map14A3NCBI
cM Map1415.06NCBI
Zcchc24
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543713,233,082 - 13,286,136 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495543713,233,151 - 13,286,136 (+)NCBIChiLan1.0ChiLan1.0
ZCCHC24
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan11091,529,571 - 91,592,222 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01075,895,013 - 75,958,628 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11078,556,965 - 78,631,941 (-)NCBIpanpan1.1PanPan1.1panPan2
ZCCHC24
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1429,103,393 - 29,161,626 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl429,103,878 - 29,163,295 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha429,224,386 - 29,285,093 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0429,401,311 - 29,462,239 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl429,403,955 - 29,462,244 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1429,272,038 - 29,332,664 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0429,474,424 - 29,535,050 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0429,828,170 - 29,889,070 (-)NCBIUU_Cfam_GSD_1.0
Zcchc24
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721351,847,474 - 51,901,099 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936521340,131 - 393,893 (+)EnsemblSpeTri2.0
SpeTri2.0NW_004936521340,157 - 391,395 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ZCCHC24
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1481,697,991 - 81,763,941 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11481,699,420 - 81,763,994 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
ZCCHC24
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1952,013,996 - 52,076,813 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl952,014,015 - 52,076,900 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604812,367,731 - 12,430,847 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Zcchc24
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475412,350,572 - 12,397,561 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475412,350,572 - 12,397,641 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Zcchc24
323 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:576
Count of miRNA genes:274
Interacting mature miRNAs:366
Transcripts:ENSRNOT00000061883
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
2325838Bp347Blood pressure QTL 3470.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1613080679Rat
1357403Slep4Serum leptin concentration QTL 43.91blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1619639137Rat
1600369Hcas8Hepatocarcinoma susceptibility QTL 8liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)16122477621Rat
631830Alc7Alcohol consumption QTL 72.9consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16126727669Rat
634355Rends4Renal damage susceptibility QTL 40.05kidney blood vessel morphology trait (VT:0000530)organ lesion measurement (CMO:0000677)16126727669Rat
1582235Insul8Insulin level QTL 83.30.0063blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)16126727669Rat
9590151Scort8Serum corticosterone level QTL 88.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)16130836262Rat
2302380Slep6Serum leptin concentration QTL 63.36blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)16132139025Rat
2307172Activ4Activity QTL 43.710.00023locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)16133418960Rat
1354584Despr6Despair related QTL 63.10.0067locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16139533930Rat
2303566Bw90Body weight QTL 902body mass (VT:0001259)body weight (CMO:0000012)16139533930Rat
631561Hcuc2Hepatic copper content QTL 22.8liver copper amount (VT:0003065)liver total copper weight (CMO:0001507)16139533949Rat
6903319Bw114Body weight QTL 1142.70.0037body mass (VT:0001259)body weight (CMO:0000012)16143534949Rat
7411664Foco30Food consumption QTL 30110.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)16144588133Rat
1354625Despr7Despair related QTL 73.160.016locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16144977551Rat
1549842Bp248Blood pressure QTL 2480.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)163802452995463Rat
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)1638024580345693Rat
2293343Glom16Glomerulus QTL 167.4kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1683223646053497Rat
2312660Bw95Body weight QTL 950.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)1683223659492508Rat
2312663Slep9Serum leptin concentration QTL 90.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1683223659492508Rat
2312666Insul16Insulin level QTL 160.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1683223659492508Rat
2312669Stl23Serum triglyceride level QTL 230.01blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1683223659492508Rat
12903278Am16Aortic mass QTL 160.019aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)168323802995225Rat
12903279Cm115Cardiac mass QTL 1150.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)168323802995225Rat
12903281Cm116Cardiac mass QTL 1160.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)168323802995225Rat
12903952Cm117Cardiac mass QTL 1170.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)168323802995225Rat
12903954Bw186Body weight QTL 1860.011body mass (VT:0001259)body weight (CMO:0000012)168323802995225Rat
2301404Bp321Blood pressure QTL 3210.05arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)168323802995225Rat
12903955Kidm69Kidney mass QTL 690.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)168323804227609Rat


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 3 43 51 41 19 41 8 11 70 23 34 11 8
Low 6 4 12 7
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000061883   ⟹   ENSRNOP00000058600
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl161,274,548 - 1,326,479 (-)Ensembl
Rnor_6.0 Ensembl161,996,540 - 2,048,292 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000106953   ⟹   ENSRNOP00000083592
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl161,274,548 - 1,326,696 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000117262   ⟹   ENSRNOP00000089173
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl161,274,548 - 1,326,464 (-)Ensembl
RefSeq Acc Id: NM_001108394   ⟹   NP_001101864
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2161,274,548 - 1,326,479 (-)NCBI
Rnor_6.0161,996,540 - 2,048,292 (-)NCBI
Rnor_5.0161,973,079 - 2,024,105 (-)NCBI
RGSC_v3.4161,310,191 - 1,361,259 (-)RGD
Celera161,251,464 - 1,303,173 (-)RGD
Sequence:
RefSeq Acc Id: XM_039094613   ⟹   XP_038950541
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2161,274,544 - 1,326,664 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001101864 (Get FASTA)   NCBI Sequence Viewer  
  XP_038950541 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL75093 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_001101864   ⟸   NM_001108394
- UniProtKB: D3ZQ09 (UniProtKB/TrEMBL),   A6KMH5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000058600   ⟸   ENSRNOT00000061883
RefSeq Acc Id: XP_038950541   ⟸   XM_039094613
- Peptide Label: isoform X1
- UniProtKB: A0A8I5ZVM8 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000089173   ⟸   ENSRNOT00000117262
RefSeq Acc Id: ENSRNOP00000083592   ⟸   ENSRNOT00000106953
Protein Domains
3CxxC-type   CCHC-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZQ09-F1-model_v2 AlphaFold D3ZQ09 1-241 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306164 AgrOrtholog
BioCyc Gene G2FUF-12270 BioCyc
Ensembl Genes ENSRNOG00000040205 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000058600 ENTREZGENE
  ENSRNOP00000058600.2 UniProtKB/TrEMBL
  ENSRNOP00000083592 ENTREZGENE
  ENSRNOP00000083592.1 UniProtKB/TrEMBL
  ENSRNOP00000089173.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000061883 ENTREZGENE
  ENSRNOT00000061883.3 UniProtKB/TrEMBL
  ENSRNOT00000106953 ENTREZGENE
  ENSRNOT00000106953.1 UniProtKB/TrEMBL
  ENSRNOT00000117262.1 UniProtKB/TrEMBL
InterPro Zcchc24_zf-3CxxC UniProtKB/TrEMBL
  zf-3CxxC UniProtKB/TrEMBL
  Zn_knuckle_CX2CX3GHX4C UniProtKB/TrEMBL
  Znf_CCHC UniProtKB/TrEMBL
  Znf_CCHC_sf UniProtKB/TrEMBL
KEGG Report rno:361104 UniProtKB/TrEMBL
NCBI Gene 361104 ENTREZGENE
Pfam zf-3CxxC_2 UniProtKB/TrEMBL
  zf-CCHC_2 UniProtKB/TrEMBL
PhenoGen Zcchc24 PhenoGen
PROSITE ZF_CCHC UniProtKB/TrEMBL
SMART zf-3CxxC UniProtKB/TrEMBL
Superfamily-SCOP SSF57756 UniProtKB/TrEMBL
UniProt A0A8I5ZVM8 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6A7L4_RAT UniProtKB/TrEMBL
  A6KMH5 ENTREZGENE, UniProtKB/TrEMBL
  D3ZQ09 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-17 Zcchc24  zinc finger CCHC-type containing 24  Zcchc24  zinc finger, CCHC domain containing 24  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-09 Zcchc24  zinc finger, CCHC domain containing 24  RGD1306164  similar to hypothetical protein FLJ90798   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1306164  similar to hypothetical protein FLJ90798   RGD1306164_predicted  similar to hypothetical protein FLJ90798 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-20 RGD1306164_predicted  similar to hypothetical protein FLJ90798 (predicted)  LOC361104_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC361104_predicted  similar to hypothetical protein FLJ90798 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL