Ccdc7b (coiled-coil domain containing 7B) - Rat Genome Database

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Gene: Ccdc7b (coiled-coil domain containing 7B) Rattus norvegicus
Analyze
Symbol: Ccdc7b
Name: coiled-coil domain containing 7B
RGD ID: 1359250
Description: Orthologous to human CCDC7 (coiled-coil domain containing 7); INTERACTS WITH bisphenol A; copper atom; copper(0).
Type: protein-coding
RefSeq Status: MODEL
Previously known as: Biot2; Ccdc7; coiled-coil domain containing 7; coiled-coil domain-containing protein 7; coiled-coil domain-containing protein 7-like; hypothetical LOC497041; hypothetical protein LOC679727; LOC497041; LOC679727; MGC93946; uncharacterized protein Ccdc7
RGD Orthologs
Human
Mouse
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81974,079,539 - 74,152,823 (+)NCBIGRCr8
mRatBN7.21957,182,480 - 57,255,764 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1957,182,509 - 57,255,763 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.01961,807,661 - 62,158,361 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1962,054,137 - 62,158,327 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01972,735,312 - 72,802,986 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.01972,697,890 - 72,720,983 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41959,154,101 - 59,213,047 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1956,497,557 - 56,568,598 (+)NCBICelera
Celera1956,096,059 - 56,395,892 (-)NCBICelera
Cytogenetic Map19q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:19277478  


Genomics

Comparative Map Data
Ccdc7b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81974,079,539 - 74,152,823 (+)NCBIGRCr8
mRatBN7.21957,182,480 - 57,255,764 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1957,182,509 - 57,255,763 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.01961,807,661 - 62,158,361 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1962,054,137 - 62,158,327 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01972,735,312 - 72,802,986 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.01972,697,890 - 72,720,983 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41959,154,101 - 59,213,047 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1956,497,557 - 56,568,598 (+)NCBICelera
Celera1956,096,059 - 56,395,892 (-)NCBICelera
Cytogenetic Map19q12NCBI
CCDC7
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381032,443,324 - 32,882,864 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1032,446,140 - 32,882,874 (+)EnsemblGRCh38hg38GRCh38
GRCh371032,735,068 - 33,171,792 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361032,896,657 - 33,211,798 (+)NCBINCBI36Build 36hg18NCBI36
Build 341032,896,656 - 33,211,796NCBI
Celera1032,621,488 - 32,937,125 (+)NCBICelera
Cytogenetic Map10p11.22NCBI
HuRef1032,576,315 - 32,891,316 (+)NCBIHuRef
CHM1_11032,858,041 - 33,173,406 (+)NCBICHM1_1
T2T-CHM13v2.01032,474,832 - 32,911,592 (+)NCBIT2T-CHM13v2.0
Ccdc7b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398129,793,592 - 129,910,213 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8129,793,615 - 129,910,213 (+)EnsemblGRCm39 Ensembl
GRCm388129,067,111 - 129,183,732 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8129,067,134 - 129,183,732 (+)EnsemblGRCm38mm10GRCm38
MGSCv378131,591,034 - 131,707,632 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368131,953,224 - 132,069,821 (+)NCBIMGSCv36mm8
Celera8133,370,987 - 133,485,283 (+)NCBICelera
Cytogenetic Map8E2NCBI
cM Map876.17NCBI
CCDC7
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2845,096,133 - 45,520,272 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11045,101,458 - 45,526,478 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01032,575,904 - 33,006,517 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11033,162,045 - 33,591,497 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1033,162,045 - 33,591,497 (+)Ensemblpanpan1.1panPan2
CCDC7
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.123,802,558 - 4,186,669 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha23,901,356 - 4,243,400 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.024,128,279 - 4,483,116 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl24,221,706 - 4,483,132 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.123,876,069 - 4,259,341 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.023,909,980 - 4,293,248 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.024,030,539 - 4,413,940 (-)NCBIUU_Cfam_GSD_1.0
Ccdc7
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934411,677,766 - 11,911,812 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049365741,183,961 - 1,263,010 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CCDC7
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11055,711,092 - 56,052,457 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21061,369,113 - 61,414,326 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CCDC7
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1931,773,123 - 32,184,079 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605640,779,928 - 41,243,208 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Ccdc7b
143 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:287
Count of miRNA genes:191
Interacting mature miRNAs:204
Transcripts:ENSRNOT00000072884, ENSRNOT00000073524, ENSRNOT00000075053
Prediction methods:Microtar, Miranda, Rnahybrid
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
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)191545586057337602Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)191563020157337602Rat
2298478Eau8Experimental allergic uveoretinitis QTL 80.0163uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)191715443357337602Rat
61350Bp32Blood pressure QTL 320.012arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192048357557337602Rat
724546Kidm3Kidney mass QTL 33.1kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)192932249057337602Rat


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 7
Low 2 2 1 1 2
Below cutoff 1 3 13 6 7 6 4 6 9 2 5 5 4

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000073524   ⟹   ENSRNOP00000065676
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1957,189,797 - 57,255,761 (+)Ensembl
Rnor_6.0 Ensembl1962,054,137 - 62,150,423 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000075053   ⟹   ENSRNOP00000066191
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1957,182,509 - 57,255,761 (+)Ensembl
Rnor_6.0 Ensembl1962,056,137 - 62,158,327 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000091209   ⟹   ENSRNOP00000071045
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1962,137,999 - 62,150,423 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000108090   ⟹   ENSRNOP00000087576
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1957,182,509 - 57,255,763 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000113844   ⟹   ENSRNOP00000097465
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1957,182,509 - 57,252,039 (+)Ensembl
RefSeq Acc Id: XM_039098123   ⟹   XP_038954051
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81974,079,540 - 74,152,823 (+)NCBI
mRatBN7.21957,182,481 - 57,255,761 (+)NCBI
RefSeq Acc Id: XM_039098124   ⟹   XP_038954052
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81974,079,540 - 74,152,823 (+)NCBI
mRatBN7.21957,182,597 - 57,255,764 (+)NCBI
RefSeq Acc Id: XM_039098125   ⟹   XP_038954053
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81974,079,539 - 74,152,823 (+)NCBI
mRatBN7.21957,182,597 - 57,255,764 (+)NCBI
RefSeq Acc Id: XM_039098126   ⟹   XP_038954054
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81974,079,541 - 74,152,823 (+)NCBI
mRatBN7.21957,182,480 - 57,255,764 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000065676   ⟸   ENSRNOT00000073524
RefSeq Acc Id: ENSRNOP00000066191   ⟸   ENSRNOT00000075053
RefSeq Acc Id: ENSRNOP00000071045   ⟸   ENSRNOT00000091209
RefSeq Acc Id: XP_038954054   ⟸   XM_039098126
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038954051   ⟸   XM_039098123
- Peptide Label: isoform X1
- UniProtKB: M0R9L6 (UniProtKB/TrEMBL),   Q6AYJ6 (UniProtKB/TrEMBL),   A0A8I6AWE1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038954052   ⟸   XM_039098124
- Peptide Label: isoform X2
- UniProtKB: A0A8I6A4F1 (UniProtKB/TrEMBL),   A0A8I6AWE1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038954053   ⟸   XM_039098125
- Peptide Label: isoform X3
- UniProtKB: A0A8I6AWE1 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000097465   ⟸   ENSRNOT00000113844
RefSeq Acc Id: ENSRNOP00000087576   ⟸   ENSRNOT00000108090

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:1359250 AgrOrtholog
BioCyc Gene G2FUF-5114 BioCyc
Ensembl Genes ENSRNOG00000050191 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000073524.3 UniProtKB/TrEMBL
  ENSRNOT00000075053.4 UniProtKB/TrEMBL
  ENSRNOT00000108090.1 UniProtKB/TrEMBL
  ENSRNOT00000113844.1 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7113858 IMAGE-MGC_LOAD
InterPro CCDC7 UniProtKB/TrEMBL
MGC_CLONE MGC:93946 IMAGE-MGC_LOAD
NCBI Gene 497041 ENTREZGENE
PANTHER COILED-COIL DOMAIN-CONTAINING PROTEIN 7 UniProtKB/TrEMBL
  PTHR22035 UniProtKB/TrEMBL
Pfam BioT2 UniProtKB/TrEMBL
PhenoGen Ccdc7b PhenoGen
RatGTEx ENSRNOG00000050191 RatGTEx
UniProt A0A8I6A4F1 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AWE1 ENTREZGENE, UniProtKB/TrEMBL
  M0R884_RAT UniProtKB/TrEMBL
  M0R9L6 ENTREZGENE
  Q6AYJ6 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary M0R9L6 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-06-28 Ccdc7b  coiled-coil domain containing 7B  Ccdc7  coiled-coil domain containing 7  Name and Symbol changed 629549 APPROVED
2021-03-09 Ccdc7  coiled-coil domain containing 7  LOC679727  hypothetical protein LOC679727  Data merged from RGD:1584814 737654 PROVISIONAL
2008-03-05 Ccdc7  coiled-coil domain containing 7  LOC497041  hypothetical LOC497041  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 LOC679727  hypothetical protein LOC679727      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-07-29 LOC497041  hypothetical LOC497041      Symbol and Name status set to provisional 70820 PROVISIONAL