Ccdc34 (coiled-coil domain containing 34) - Rat Genome Database

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Gene: Ccdc34 (coiled-coil domain containing 34) Rattus norvegicus
Analyze
Symbol: Ccdc34
Name: coiled-coil domain containing 34
RGD ID: 1560583
Description: Predicted to be involved in spermatogenesis. Predicted to be located in sperm midpiece. Human ortholog(s) of this gene implicated in spermatogenic failure. Orthologous to human CCDC34 (coiled-coil domain containing 34); INTERACTS WITH 1-naphthyl isothiocyanate; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: coiled-coil domain-containing protein 34; LOC362187; RGD1560583; similar to 2810027O19Rik protein
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83117,007,652 - 117,042,885 (+)NCBIGRCr8
mRatBN7.2396,553,074 - 96,588,310 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl396,552,992 - 96,588,146 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3100,113,017 - 100,148,432 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03108,711,982 - 108,747,395 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03106,475,730 - 106,510,963 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03101,156,212 - 101,191,363 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3101,156,212 - 101,191,363 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03107,756,836 - 107,791,987 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4395,475,133 - 95,510,284 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera395,577,382 - 95,612,531 (+)NCBICelera
Cytogenetic Map3q34NCBI
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

Biological Process

Cellular Component

Molecular Function

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
Ccdc34
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83117,007,652 - 117,042,885 (+)NCBIGRCr8
mRatBN7.2396,553,074 - 96,588,310 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl396,552,992 - 96,588,146 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3100,113,017 - 100,148,432 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03108,711,982 - 108,747,395 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03106,475,730 - 106,510,963 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03101,156,212 - 101,191,363 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3101,156,212 - 101,191,363 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03107,756,836 - 107,791,987 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4395,475,133 - 95,510,284 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera395,577,382 - 95,612,531 (+)NCBICelera
Cytogenetic Map3q34NCBI
CCDC34
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381127,338,512 - 27,363,215 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1127,330,827 - 27,363,234 (-)EnsemblGRCh38hg38GRCh38
GRCh371127,360,059 - 27,384,762 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361127,316,637 - 27,341,371 (-)NCBINCBI36Build 36hg18NCBI36
Celera1127,504,487 - 27,530,149 (-)NCBICelera
Cytogenetic Map11p14.1NCBI
HuRef1127,057,327 - 27,082,139 (-)NCBIHuRef
CHM1_11127,359,509 - 27,384,215 (-)NCBICHM1_1
T2T-CHM13v2.01127,479,013 - 27,503,719 (-)NCBIT2T-CHM13v2.0
Ccdc34
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392109,847,816 - 110,006,007 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2109,848,162 - 110,003,705 (+)EnsemblGRCm39 Ensembl
GRCm382110,017,499 - 110,175,662 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2110,017,817 - 110,173,360 (+)EnsemblGRCm38mm10GRCm38
MGSCv372109,857,974 - 109,885,482 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362109,818,678 - 109,845,487 (+)NCBIMGSCv36mm8
Celera2111,179,476 - 111,206,757 (+)NCBICelera
Cytogenetic Map2E3NCBI
cM Map256.66NCBI
Ccdc34
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554766,589,787 - 6,603,576 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554766,589,506 - 6,604,070 (-)NCBIChiLan1.0ChiLan1.0
CCDC34
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2929,548,455 - 29,573,882 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11129,548,912 - 29,574,330 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01127,302,234 - 27,328,188 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11127,205,521 - 27,230,710 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1127,205,521 - 27,230,710 (-)Ensemblpanpan1.1panPan2
CCDC34
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13118,151,461 - 18,152,344 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3118,193,030 - 18,193,913 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03118,189,343 - 18,190,225 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.13118,199,898 - 18,200,782 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03118,206,222 - 18,207,104 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03118,607,471 - 18,608,355 (-)NCBIUU_Cfam_GSD_1.0
Ccdc34
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494736,693,283 - 36,716,967 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365405,848,237 - 5,874,450 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365405,848,001 - 5,872,720 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CCDC34
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl232,984,193 - 33,021,935 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1232,984,100 - 33,021,246 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2235,619,284 - 35,656,392 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CCDC34
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1137,743,337 - 37,767,456 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl137,743,975 - 37,767,638 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666038135,053,310 - 135,077,436 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ccdc34
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476617,094,157 - 17,106,683 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476617,047,144 - 17,106,729 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ccdc34
216 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:126
Count of miRNA genes:102
Interacting mature miRNAs:104
Transcripts:ENSRNOT00000065333
Prediction methods: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
1358885Bp251Blood pressure QTL 2513.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)314489145121056321Rat
1358888Bp264Blood pressure QTL 2644.43arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)314489145121056321Rat
737818Hcar12Hepatocarcinoma resistance QTL 122.6liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)329463235118376539Rat
61419Cia11Collagen induced arthritis QTL 115.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)33035677398535386Rat
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)331172320163586636Rat
1354604Bw36Body weight QTL 362.9body mass (VT:0001259)body weight (CMO:0000012)333703347104104347Rat
1358362Srcrt2Stress Responsive Cort QTL 22.78blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)338192233133483320Rat
1354597Kidm13Kidney mass QTL 132.9kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)341874578104104347Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)341874578155617519Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)341874578155617519Rat
1581503Cm58Cardiac mass QTL 582.70.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)343827364121056321Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)343827364169034231Rat
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)347233211147415807Rat
1358186Ept2Estrogen-induced pituitary tumorigenesis QTL 28.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)347233430110362260Rat
2292613Ept16Estrogen-induced pituitary tumorigenesis QTL 168.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)347233430110362260Rat
631665Bw8Body weight QTL 85.5body mass (VT:0001259)body weight (CMO:0000012)350437042119183768Rat
724523Tsu1Thymus enlargement suppressive QTL 13.84thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)350437504115638231Rat
1582218Bw74Body weight QTL 743.90.0021body mass (VT:0001259)body weight (CMO:0000012)353184593115665732Rat
1582238Bw68Body weight QTL 683.20.0064body mass (VT:0001259)body weight (CMO:0000012)353184593115665732Rat
1582239Epfw1Epididymal fat weight QTL 14.50.0006epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)353184593115665732Rat
1581568Rf53Renal function QTL 53urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)356395968161299569Rat
8662816Vetf4Vascular elastic tissue fragility QTL 44renal artery integrity trait (VT:0010642)number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)359242096157323038Rat
1300111Rf12Renal function QTL 123.78renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)361017749121056321Rat
1582210Bw71Body weight QTL 713.30.0012body mass (VT:0001259)body weight (CMO:0000012)364655305115665732Rat
1582221Kidm30Kidney mass QTL 303.50.0008kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)364655305115665732Rat
12879848Bw181Body weght QTL 1810.015body mass (VT:0001259)body weight (CMO:0000012)370348525121056321Rat
2301414Kidm37Kidney mass QTL 370.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)370653097121056321Rat
1600376Arunc5Aerobic running capacity QTL 50.21exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)373376539118376539Rat
1581546Pur13Proteinuria QTL 132.930.0335urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)378196190146592722Rat
2302273Gluco35Glucose level QTL 355.30.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)380800231114297550Rat
631649Bp123Blood pressure QTL 1233.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)389772419134772419Rat
8694437Bw167Body weight QTL 16722.460.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)391797474136797474Rat
631841Niddm39Non-insulin dependent diabetes mellitus QTL 393.36blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)394856903159898684Rat
724532Cm17Cardiac mass QTL 172heart mass (VT:0007028)calculated heart weight (CMO:0000073)395735366140735366Rat
1582252Sual1Serum uric acid level QTL 13.40.0123blood uric acid amount (VT:0010302)blood uric acid level (CMO:0000501)396127817102200699Rat
1582219Bw63Body weight QTL 633.80.001body mass (VT:0001259)body weight (CMO:0000012)396127817115665732Rat

Markers in Region
RH130530  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2396,587,327 - 96,587,509 (+)MAPPERmRatBN7.2
Rnor_6.03101,190,545 - 101,190,726NCBIRnor6.0
Rnor_5.03107,791,169 - 107,791,350UniSTSRnor5.0
RGSC_v3.4395,509,466 - 95,509,647UniSTSRGSC3.4
Celera395,611,713 - 95,611,894UniSTS
RH 3.4 Map3761.1UniSTS
Cytogenetic Map3q33UniSTS
RH139865  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2396,551,743 - 96,551,932 (+)MAPPERmRatBN7.2
Rnor_6.03101,154,964 - 101,155,152NCBIRnor6.0
Rnor_5.03107,755,588 - 107,755,776UniSTSRnor5.0
RGSC_v3.4395,473,885 - 95,474,073UniSTSRGSC3.4
Celera395,576,134 - 95,576,322UniSTS
RH 3.4 Map3759.0UniSTS
Cytogenetic Map3q33UniSTS
UniSTS:234479  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2396,587,572 - 96,587,760 (+)MAPPERmRatBN7.2
Rnor_6.03101,190,790 - 101,190,977NCBIRnor6.0
Rnor_5.03107,791,414 - 107,791,601UniSTSRnor5.0
RGSC_v3.4395,509,711 - 95,509,898UniSTSRGSC3.4
Celera395,611,958 - 95,612,145UniSTS
Cytogenetic Map3q33UniSTS


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 24 21 16 5 16 49 18 33
Low 19 36 25 14 25 8 10 25 17 8 11 8
Below cutoff 1

Sequence


RefSeq Acc Id: ENSRNOT00000065333   ⟹   ENSRNOP00000061260
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl396,552,992 - 96,588,146 (+)Ensembl
Rnor_6.0 Ensembl3101,156,212 - 101,191,363 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000113854   ⟹   ENSRNOP00000082557
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl396,552,992 - 96,588,146 (+)Ensembl
RefSeq Acc Id: NM_001395602   ⟹   NP_001382531
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83117,007,652 - 117,042,885 (+)NCBI
mRatBN7.2396,553,074 - 96,588,310 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001382531 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL79760 (Get FASTA)   NCBI Sequence Viewer  
  EDL79761 (Get FASTA)   NCBI Sequence Viewer  
  EDL79762 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000061260.1
  ENSRNOP00000082557
  ENSRNOP00000082557.1
RefSeq Acc Id: ENSRNOP00000061260   ⟸   ENSRNOT00000065333
RefSeq Acc Id: ENSRNOP00000082557   ⟸   ENSRNOT00000113854
RefSeq Acc Id: NP_001382531   ⟸   NM_001395602
- UniProtKB: A0A8I5ZUR6 (UniProtKB/TrEMBL),   A6HP10 (UniProtKB/TrEMBL)
Protein Domains
Coiled-coil

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A5Z6-F1-model_v2 AlphaFold D4A5Z6 1-311 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:1560583 AgrOrtholog
BioCyc Gene G2FUF-48476 BioCyc
Ensembl Genes ENSRNOG00000005902 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000065333.2 UniProtKB/TrEMBL
  ENSRNOT00000113854 ENTREZGENE
  ENSRNOT00000113854.1 UniProtKB/TrEMBL
InterPro CCDC34 UniProtKB/TrEMBL
  CCDC34 UniProtKB/TrEMBL
KEGG Report rno:362187 UniProtKB/TrEMBL
NCBI Gene 362187 ENTREZGENE
PANTHER COILED-COIL DOMAIN-CONTAINING PROTEIN 34 UniProtKB/TrEMBL
  PTHR23247 UniProtKB/TrEMBL
Pfam DUF4207 UniProtKB/TrEMBL
PhenoGen Ccdc34 PhenoGen
RatGTEx ENSRNOG00000005902 RatGTEx
UniProt A0A8I5ZUR6 ENTREZGENE, UniProtKB/TrEMBL
  A6HP10 ENTREZGENE, UniProtKB/TrEMBL
  D4A5Z6_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-28 Ccdc34  coiled-coil domain containing 34  RGD1560583_predicted  similar to 2810027O19Rik protein (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1560583_predicted  similar to 2810027O19Rik protein (predicted)  LOC362187  similar to 2810027O19Rik protein  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC362187  similar to 2810027O19Rik protein      Symbol and Name status set to provisional 70820 PROVISIONAL