Ccdc102a (coiled-coil domain containing 102A) - Rat Genome Database

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Gene: Ccdc102a (coiled-coil domain containing 102A) Rattus norvegicus
Analyze
Symbol: Ccdc102a
Name: coiled-coil domain containing 102A
RGD ID: 1308684
Description: Predicted to be part of myosin complex. Orthologous to human CCDC102A (coiled-coil domain containing 102A); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; acetamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: coiled-coil domain-containing protein 102A; LOC361363; RGD1308684; similar to hypothetical protein LOC92922
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
GRCr81910,108,553 - 10,124,652 (+)NCBIGRCr8
mRatBN7.21910,102,543 - 10,118,657 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1910,103,361 - 10,118,657 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1910,067,467 - 10,082,844 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01910,834,312 - 10,849,689 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01910,121,262 - 10,136,640 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01910,518,822 - 10,535,162 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1910,519,493 - 10,535,162 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01910,515,600 - 10,531,535 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41910,540,236 - 10,558,485 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11910,548,830 - 10,562,918 (+)NCBI
Celera199,990,082 - 10,005,355 (+)NCBICelera
Cytogenetic Map19p13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function
ATP binding  (IEA)

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Ccdc102a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81910,108,553 - 10,124,652 (+)NCBIGRCr8
mRatBN7.21910,102,543 - 10,118,657 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1910,103,361 - 10,118,657 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1910,067,467 - 10,082,844 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01910,834,312 - 10,849,689 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01910,121,262 - 10,136,640 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01910,518,822 - 10,535,162 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1910,519,493 - 10,535,162 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01910,515,600 - 10,531,535 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41910,540,236 - 10,558,485 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11910,548,830 - 10,562,918 (+)NCBI
Celera199,990,082 - 10,005,355 (+)NCBICelera
Cytogenetic Map19p13NCBI
CCDC102A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381657,512,181 - 57,537,016 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1657,512,181 - 57,536,571 (-)EnsemblGRCh38hg38GRCh38
GRCh371657,546,093 - 57,570,483 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361656,103,591 - 56,127,978 (-)NCBINCBI36Build 36hg18NCBI36
Celera1642,046,911 - 42,071,294 (-)NCBICelera
Cytogenetic Map16q21NCBI
HuRef1643,413,675 - 43,437,966 (-)NCBIHuRef
CHM1_11658,954,127 - 58,978,514 (-)NCBICHM1_1
T2T-CHM13v2.01663,307,389 - 63,331,765 (-)NCBIT2T-CHM13v2.0
Ccdc102a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39895,629,497 - 95,644,726 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl895,629,497 - 95,644,726 (-)EnsemblGRCm39 Ensembl
GRCm38894,902,869 - 94,918,098 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl894,902,869 - 94,918,098 (-)EnsemblGRCm38mm10GRCm38
MGSCv37897,426,769 - 97,441,998 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36897,792,000 - 97,807,184 (-)NCBIMGSCv36mm8
Celera899,226,816 - 99,242,097 (-)NCBICelera
Cytogenetic Map8C5NCBI
cM Map846.99NCBI
Ccdc102a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543315,138,289 - 15,157,149 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495543315,138,379 - 15,150,041 (-)NCBIChiLan1.0ChiLan1.0
CCDC102A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21866,982,461 - 67,006,310 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11672,903,362 - 72,928,475 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01637,788,129 - 37,813,384 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11656,921,212 - 56,946,141 (-)NCBIpanpan1.1PanPan1.1panPan2
CCDC102A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1258,907,172 - 58,921,929 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl258,906,887 - 58,920,119 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha255,528,150 - 55,550,323 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0259,436,996 - 59,459,187 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl259,445,288 - 59,458,546 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1256,268,378 - 56,290,566 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0257,276,120 - 57,298,276 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0258,169,517 - 58,191,719 (+)NCBIUU_Cfam_GSD_1.0
Ccdc102a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934950,014,380 - 50,025,967 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364759,563,104 - 9,573,990 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364759,563,108 - 9,573,954 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CCDC102A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl619,437,169 - 19,456,905 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1619,436,379 - 19,456,995 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2617,426,948 - 17,447,546 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CCDC102A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1543,446,218 - 43,469,473 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl543,445,373 - 43,461,426 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604732,748,337 - 32,771,747 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ccdc102a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474628,552,104 - 28,570,321 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474628,551,161 - 28,568,664 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ccdc102a
113 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:160
Count of miRNA genes:120
Interacting mature miRNAs:134
Transcripts:ENSRNOT00000030229
Prediction methods:Microtar, 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
7411590Foco7Food consumption QTL 76.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)19124688055Rat
10054132Srcrt9Stress Responsive Cort QTL 92.870.0017blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19127355345Rat
631678Cm9Cardiac mass QTL 94.270.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)19128982497Rat
631681Cm12Cardiac mass QTL 123.330.00053heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)19128982497Rat
1549847Bss8Bone structure and strength QTL 84lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)19131963836Rat
9590298Uminl5Urine mineral level QTL 53.590.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)19136824771Rat
8552935Pigfal10Plasma insulin-like growth factor 1 level QTL 105.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)19136824771Rat
9590250Scort11Serum corticosterone level QTL 1123.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19136824771Rat
9590090Insglur8Insulin/glucose ratio QTL 810.810.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)19136824771Rat
9589102Slep13Serum leptin concentration QTL 134.630.001blood leptin amount (VT:0005667)plasma leptin level (CMO:0000781)1956937445569374Rat
8694186Bw152Body weight QTL 1523.340.001body mass (VT:0001259)body weight gain (CMO:0000420)1956937445569374Rat
7247442Uae39Urinary albumin excretion QTL 39urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19218792746708701Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19218792756457239Rat
61447Tcas1Tongue tumor susceptibility QTL 16.08tongue integrity trait (VT:0010553)squamous cell carcinoma of the tongue maximum tumor diameter (CMO:0001875)19231612147316121Rat
2317848Alcrsp21Alcohol response QTL 211.8999999761581420.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)19320477748204777Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19409615555283277Rat
724518Uae19Urinary albumin excretion QTL 195.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19745724942983518Rat
724565Tcas5Tongue tumor susceptibility QTL 510.04tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)19997775339654489Rat

Markers in Region
RH138763  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21910,109,196 - 10,109,384 (+)MAPPERmRatBN7.2
Rnor_6.01910,525,323 - 10,525,510NCBIRnor6.0
Rnor_5.01910,522,086 - 10,522,273UniSTSRnor5.0
RGSC_v3.41910,546,370 - 10,546,557UniSTSRGSC3.4
Celera199,995,881 - 9,996,068UniSTS
RH 3.4 Map1993.81UniSTS
Cytogenetic Map19p13UniSTS
RH139623  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21910,118,219 - 10,118,405 (+)MAPPERmRatBN7.2
Rnor_6.01910,534,725 - 10,534,910NCBIRnor6.0
Rnor_5.01910,531,098 - 10,531,283UniSTSRnor5.0
RGSC_v3.41910,558,048 - 10,558,233UniSTSRGSC3.4
Celera1910,004,918 - 10,005,103UniSTS
RH 3.4 Map1994.58UniSTS
Cytogenetic Map19p13UniSTS


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 28 10 10 5 10 14 21 33 6
Low 3 15 46 30 14 30 8 11 60 14 8 5 8
Below cutoff 1 1 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000030229   ⟹   ENSRNOP00000035778
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1910,103,361 - 10,118,657 (+)Ensembl
Rnor_6.0 Ensembl1910,519,493 - 10,535,162 (+)Ensembl
RefSeq Acc Id: NM_001108437   ⟹   NP_001101907
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81910,109,364 - 10,124,652 (+)NCBI
mRatBN7.21910,103,361 - 10,118,657 (+)NCBI
Rnor_6.01910,519,493 - 10,535,162 (+)NCBI
Rnor_5.01910,515,600 - 10,531,535 (+)NCBI
RGSC_v3.41910,540,236 - 10,558,485 (+)RGD
Celera199,990,082 - 10,005,355 (+)RGD
Sequence:
RefSeq Acc Id: XM_006255116   ⟹   XP_006255178
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81910,108,600 - 10,124,652 (+)NCBI
mRatBN7.21910,102,588 - 10,118,657 (+)NCBI
Rnor_6.01910,518,822 - 10,535,162 (+)NCBI
Rnor_5.01910,515,600 - 10,531,535 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039097808   ⟹   XP_038953736
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81910,108,599 - 10,124,652 (+)NCBI
mRatBN7.21910,102,588 - 10,118,657 (+)NCBI
RefSeq Acc Id: XM_039097809   ⟹   XP_038953737
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81910,108,553 - 10,119,502 (+)NCBI
mRatBN7.21910,102,543 - 10,113,508 (+)NCBI
RefSeq Acc Id: XM_063278103   ⟹   XP_063134173
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81910,108,561 - 10,121,004 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_001101907   ⟸   NM_001108437
- UniProtKB: A6JY36 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006255178   ⟸   XM_006255116
- Peptide Label: isoform X1
- UniProtKB: D3ZSR7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000035778   ⟸   ENSRNOT00000030229
RefSeq Acc Id: XP_038953737   ⟸   XM_039097809
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038953736   ⟸   XM_039097808
- Peptide Label: isoform X1
- UniProtKB: D3ZSR7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063134173   ⟸   XM_063278103
- Peptide Label: isoform X2
Protein Domains
Myosin tail

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZSR7-F1-model_v2 AlphaFold D3ZSR7 1-549 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:1308684 AgrOrtholog
BioCyc Gene G2FUF-6519 BioCyc
Ensembl Genes ENSRNOG00000025843 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000030229 ENTREZGENE
  ENSRNOT00000030229.7 UniProtKB/TrEMBL
Gene3D-CATH 1.20.5.340 UniProtKB/TrEMBL
  6.10.250.2420 UniProtKB/TrEMBL
InterPro Myosin_tail UniProtKB/TrEMBL
KEGG Report rno:361363 UniProtKB/TrEMBL
NCBI Gene 361363 ENTREZGENE
PANTHER COILED-COIL DOMAIN-CONTAINING PROTEIN 102A UniProtKB/TrEMBL
  COILED-COIL DOMAIN-CONTAINING PROTEIN 102A UniProtKB/TrEMBL
Pfam Myosin_tail_1 UniProtKB/TrEMBL
PhenoGen Ccdc102a PhenoGen
RatGTEx ENSRNOG00000025843 RatGTEx
Superfamily-SCOP Myosin rod fragments UniProtKB/TrEMBL
UniProt A6JY36 ENTREZGENE, UniProtKB/TrEMBL
  D3ZSR7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-26 Ccdc102a  coiled-coil domain containing 102A  RGD1308684_predicted  similar to hypothetical protein LOC92922 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 RGD1308684_predicted  similar to hypothetical protein LOC92922 (predicted)  LOC361363_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC361363_predicted  similar to hypothetical protein LOC92922 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL