Ccdc39 (coiled-coil domain containing 39) - Rat Genome Database

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Gene: Ccdc39 (coiled-coil domain containing 39) Mus musculus
Analyze
Symbol: Ccdc39
Name: coiled-coil domain containing 39
RGD ID: 1332183
MGI Page MGI
Description: Acts upstream of or within several processes, including cerebrospinal fluid circulation; establishment of left/right asymmetry; and inner dynein arm assembly. Located in 9+2 motile cilium and cytosol. Is expressed in several structures, including central nervous system; ileum; male reproductive gland or organ; respiratory system; and secondary heart field. Used to study Kartagener syndrome; hydrocephalus; primary ciliary dyskinesia 14; and visceral heterotaxy. Human ortholog(s) of this gene implicated in primary ciliary dyskinesia 14. Orthologous to human CCDC39 (coiled-coil domain containing 39).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 4921507O14Rik; AI447426; AI844750; b2b1304C; b2b1304Clo; b2b1735C; b2b1735Clo; b2b2025.1Clo; coiled-coil domain-containing protein 39; D3Ertd789; D3Ertd789e; expressed sequence AI844750; p; prh
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39333,864,906 - 33,898,473 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl333,866,511 - 33,898,459 (-)EnsemblGRCm39 Ensembl
GRCm38333,810,757 - 33,844,325 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl333,812,362 - 33,844,310 (-)EnsemblGRCm38mm10GRCm38
MGSCv37333,711,283 - 33,743,232 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36334,003,911 - 34,035,850 (-)NCBIMGSCv36mm8
Celera333,711,582 - 33,743,117 (-)NCBICelera
Cytogenetic Map3A3NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
abdominal situs ambiguus  (IEA)
abdominal situs inversus  (IEA)
abnormal aortic arch morphology  (IEA)
abnormal brain development  (IAGP)
abnormal brain ependyma motile cilium morphology  (IAGP)
abnormal brain ependyma motile cilium physiology  (IAGP)
abnormal cerebrospinal fluid flow  (IAGP)
abnormal cortical ventricular zone morphology  (IAGP)
abnormal inferior vena cava morphology  (IEA)
abnormal liver morphology  (IEA)
abnormal postnatal subventricular zone morphology  (IAGP)
absent spleen  (IEA)
atrial septal defect  (IEA)
atrioventricular septal defect  (IEA)
decreased body weight  (IAGP)
dextrocardia  (IEA)
dilated lateral ventricle  (IAGP)
dilated third ventricle  (IAGP)
double outlet right ventricle  (IEA)
double outlet right ventricle with atrioventricular septal defect  (IEA)
double outlet right ventricle, Taussig bing type  (IEA)
dual inferior vena cava  (IEA)
dysmyelination  (IAGP)
enlarged brain ventricles  (IAGP)
enlarged lateral ventricles  (IAGP)
gliosis  (IAGP)
heterotaxia  (IAGP)
hydrocephaly  (IAGP)
hydronephrosis  (IEA)
immotile respiratory cilia  (IEA)
interrupted aortic arch  (IEA)
left atrial isomerism  (IEA)
left pulmonary isomerism  (IEA)
micrognathia  (IEA)
muscular ventricular septal defect  (IEA)
overriding aortic valve  (IEA)
perimembraneous ventricular septal defect  (IEA)
polycystic kidney  (IEA)
postnatal lethality, complete penetrance  (IAGP)
preweaning lethality, incomplete penetrance  (IEA)
right atrial isomerism  (IEA)
right-sided stomach  (IAGP)
situs inversus totalis  (IAGP)
small olfactory bulb  (IAGP)
spleen hypoplasia  (IEA)
superior-inferior ventricles  (IEA)
transposition of great arteries  (IEA)
vascular ring  (IEA)
References

References - curated
# Reference Title Reference Citation
1. Impaired neural differentiation and glymphatic CSF flow in the Ccdc39 rat model of neonatal hydrocephalus: genetic interaction with L1cam. Emmert AS, etal., Dis Model Mech. 2019 Nov 21;12(11). pii: 12/11/dmm040972. doi: 10.1242/dmm.040972.
2. Electronic Transfer of Homolog Data MGD and Homologene mouse data transfer
3. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
4. Mouse MP Annotation Import Pipeline RGD automated import pipeline
5. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:10725249   PMID:10922068   PMID:11042159   PMID:11076861   PMID:11125038   PMID:11217851   PMID:12466851   PMID:12477932   PMID:16141072   PMID:16141073  
PMID:17971504   PMID:21267068   PMID:21515572   PMID:21677750   PMID:21873635   PMID:24194600   PMID:25807483   PMID:27340223   PMID:28289722   PMID:29317443   PMID:32098917   PMID:32325033  


Genomics

Comparative Map Data
Ccdc39
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39333,864,906 - 33,898,473 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl333,866,511 - 33,898,459 (-)EnsemblGRCm39 Ensembl
GRCm38333,810,757 - 33,844,325 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl333,812,362 - 33,844,310 (-)EnsemblGRCm38mm10GRCm38
MGSCv37333,711,283 - 33,743,232 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36334,003,911 - 34,035,850 (-)NCBIMGSCv36mm8
Celera333,711,582 - 33,743,117 (-)NCBICelera
Cytogenetic Map3A3NCBI
CCDC39
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383180,614,008 - 180,679,489 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl3180,602,858 - 180,684,942 (-)EnsemblGRCh38hg38GRCh38
GRCh373180,331,796 - 180,397,277 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 363181,814,490 - 181,879,977 (-)NCBINCBI36Build 36hg18NCBI36
Celera3178,763,919 - 178,829,392 (-)NCBICelera
Cytogenetic Map3q26.33NCBI
HuRef3177,736,230 - 177,801,706 (-)NCBIHuRef
CHM1_13180,295,002 - 180,360,497 (-)NCBICHM1_1
T2T-CHM13v2.03183,415,869 - 183,481,362 (-)NCBIT2T-CHM13v2.0
Ccdc39
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22116,665,261 - 116,703,364 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2116,665,261 - 116,703,350 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2123,255,155 - 123,293,114 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.02121,367,846 - 121,405,805 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.02116,006,726 - 116,044,684 (-)NCBIRnor_WKY
Rnor_6.02120,278,605 - 120,367,829 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2120,278,605 - 120,316,600 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02139,933,049 - 139,971,476 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42120,117,112 - 120,154,958 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12120,063,147 - 120,160,273 (-)NCBI
Celera2111,715,097 - 111,753,041 (-)NCBICelera
Cytogenetic Map2q24NCBI
Ccdc39
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554209,690,295 - 9,727,835 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554209,689,076 - 9,727,806 (-)NCBIChiLan1.0ChiLan1.0
CCDC39
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.13185,811,581 - 185,878,362 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3185,813,245 - 185,878,362 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v03177,640,127 - 177,705,885 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
CCDC39
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13413,915,763 - 13,959,574 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3413,905,434 - 13,959,340 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3417,997,731 - 18,042,006 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03413,816,636 - 13,860,663 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3413,817,526 - 13,860,510 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13413,861,026 - 13,905,119 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03413,841,017 - 13,885,062 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03414,089,242 - 14,133,306 (-)NCBIUU_Cfam_GSD_1.0
Ccdc39
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405602110,557,085 - 110,610,035 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049365662,610,756 - 2,663,657 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CCDC39
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13118,626,330 - 118,682,281 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113118,623,787 - 118,773,205 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213127,828,111 - 127,901,388 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CCDC39
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1158,730,456 - 8,789,379 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl158,731,278 - 8,788,523 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606317,563,089 - 17,622,222 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ccdc39
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473058,436,469 - 58,471,799 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473058,436,427 - 58,471,926 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:458
Count of miRNA genes:354
Interacting mature miRNAs:404
Transcripts:ENSMUST00000029222, ENSMUST00000125845, ENSMUST00000127844, ENSMUST00000135728, ENSMUST00000154577
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
26884436Zlq3_mzygomatic length QTL 3, 10 week (mouse)33265060142405761Mouse
1300559Thypr3_mthymocyte proliferative response 3 (mouse)Not determined3452541938525519Mouse
1558925Hivan1_mHIV-associated nephropathy 1 (mouse)Not determined3758617468716946Mouse
4142399Aec1_mautoimmune exocrinopathy 1 (mouse)Not determined7586174102690034Mouse
4141116Lgaq4_mlate growth adjusted QTL 4 (mouse)Not determined1024922183184946Mouse
4141255W10q3_mweight 10 weeks QTL 3 (mouse)Not determined1024922183184946Mouse
4141563Lgq3_mlate growth QTL 3 (mouse)Not determined1024922183184946Mouse
39128206Lwq18_mliver weight QTL 18 (mouse)31024922183184946Mouse
1357584Splq6_mspleen weight QTL 6 (mouse)Not determined31024922183184946Mouse
1357440Hrtpq1_mheart weight percentage QTL 1 (mouse)Not determined31024922183184946Mouse
1301358Eae20_mexperimental allergic encephalomyelitis 20 (mouse)Not determined31163045345630591Mouse
26884427Cvht4_mcranial vault height 4, 10 week (mouse)316054164109707316Mouse
13207570Tcq12_mtotal cholesterol QTL 12 (mouse)316504164130163649Mouse
4142092Tgq13_mtriglyceride QTL 13 (mouse)Not determined1828816852288168Mouse
1301114Ssial2_msusceptibility to sialadenitis 2 (mouse)Not determined32017486254180103Mouse
26884422Cvht7_mcranial vault height 7, 16 week (mouse)328954149118893649Mouse
1302056Orgwq4_morgan weight QTL 4 (mouse)Not determined330067588147304689Mouse
1300961Bh4p_mbar holding four paws (mouse)Not determined33183785465837997Mouse
12910778Pwgrq13_mpost-weaning growth rate QTL 13 (mouse)33263576058017363Mouse
12910781Pwgrq12_mpost-weaning growth rate QTL 12 (mouse)33263576058017363Mouse
1357689Mdmsc1_mmodifier of muscularity 1 (mouse)Not determined33332720145916479Mouse
10412073Ssen2_msuseptibility to Sendai virus 2 (mouse)Not determined33353546567535615Mouse
9587784Afw13_mabdominal fat weight QTL 13 (mouse)Not determined33375204567752228Mouse
10043882Bwtq13_mbody weight QTL 13 (mouse)Not determined33375204567752228Mouse

Markers in Region
BE456625  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38333,813,512 - 33,813,594UniSTSGRCm38
MGSCv37333,712,434 - 33,712,516UniSTSGRCm37
Celera333,712,733 - 33,712,815UniSTS
Cytogenetic Map3A3UniSTS
Cytogenetic Map3BUniSTS
Whitehead/MRC_RH3374.08UniSTS
AI844750  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38333,838,243 - 33,838,360UniSTSGRCm38
MGSCv37333,737,165 - 33,737,282UniSTSGRCm37
Celera333,737,040 - 33,737,157UniSTS
Cytogenetic Map3A3UniSTS
Whitehead/MRC_RH3352.34UniSTS
AI447426  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38333,812,463 - 33,812,555UniSTSGRCm38
MGSCv37333,711,385 - 33,711,477UniSTSGRCm37
Celera333,711,684 - 33,711,776UniSTS
Cytogenetic Map3A3UniSTS
Cytogenetic Map3BUniSTS
Whitehead/MRC_RH3372.84UniSTS
UniSTS:234657  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38333,814,000 - 33,814,303UniSTSGRCm38
MGSCv37333,712,922 - 33,713,225UniSTSGRCm37
Celera333,713,221 - 33,713,524UniSTS
Cytogenetic Map3A3UniSTS
Cytogenetic Map3BUniSTS
D3Ertd789e  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38333,812,486 - 33,812,691UniSTSGRCm38
MGSCv37333,711,408 - 33,711,613UniSTSGRCm37
Celera333,711,707 - 33,711,912UniSTS
Cytogenetic Map3BUniSTS
Cytogenetic Map3A3UniSTS
cM Map3 UniSTS


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_026222 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006535498 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006535499 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006535500 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_011249686 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_001783715 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_003954357 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_003954358 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_003954359 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC154395 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK007153 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK014839 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK029948 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK030087 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK083226 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK162849 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK163953 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC138917 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC138920 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466530 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000029222   ⟹   ENSMUSP00000029222
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl333,866,511 - 33,898,450 (-)Ensembl
GRCm38.p6 Ensembl333,812,362 - 33,844,301 (-)Ensembl
RefSeq Acc Id: ENSMUST00000197230
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl333,892,143 - 33,898,459 (-)Ensembl
GRCm38.p6 Ensembl333,837,994 - 33,844,310 (-)Ensembl
RefSeq Acc Id: ENSMUST00000200277
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl333,874,336 - 33,898,224 (-)Ensembl
GRCm38.p6 Ensembl333,820,187 - 33,844,075 (-)Ensembl
RefSeq Acc Id: ENSMUST00000200300
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl333,872,797 - 33,898,450 (-)Ensembl
GRCm38.p6 Ensembl333,818,648 - 33,844,301 (-)Ensembl
RefSeq Acc Id: ENSMUST00000200536
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl333,867,203 - 33,868,700 (-)Ensembl
GRCm38.p6 Ensembl333,813,054 - 33,814,551 (-)Ensembl
RefSeq Acc Id: ENSMUST00000200551
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl333,878,735 - 33,880,689 (-)Ensembl
GRCm38.p6 Ensembl333,824,586 - 33,826,540 (-)Ensembl
RefSeq Acc Id: NM_026222   ⟹   NP_080498
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39333,866,510 - 33,898,459 (-)NCBI
GRCm38333,812,361 - 33,844,310 (-)NCBI
MGSCv37333,711,283 - 33,743,232 (-)RGD
Celera333,711,582 - 33,743,117 (-)RGD
cM Map3 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006535498   ⟹   XP_006535561
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39333,864,906 - 33,898,471 (-)NCBI
GRCm38333,810,757 - 33,844,324 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006535499   ⟹   XP_006535562
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39333,864,906 - 33,898,473 (-)NCBI
GRCm38333,810,757 - 33,844,323 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006535500   ⟹   XP_006535563
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39333,871,013 - 33,898,473 (-)NCBI
GRCm38333,816,872 - 33,844,325 (-)NCBI
Sequence:
RefSeq Acc Id: XM_011249686   ⟹   XP_011247988
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39333,864,906 - 33,886,868 (-)NCBI
GRCm38333,810,757 - 33,832,617 (-)NCBI
Sequence:
RefSeq Acc Id: XR_001783715
RefSeq Status:
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39333,864,906 - 33,898,473 (-)NCBI
GRCm38333,810,757 - 33,844,324 (-)NCBI
Sequence:
RefSeq Acc Id: XR_003954357
RefSeq Status:
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39333,864,906 - 33,898,473 (-)NCBI
GRCm38333,810,757 - 33,844,325 (-)NCBI
Sequence:
RefSeq Acc Id: XR_003954358
RefSeq Status:
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39333,867,217 - 33,898,473 (-)NCBI
GRCm38333,813,068 - 33,844,324 (-)NCBI
Sequence:
RefSeq Acc Id: XR_003954359
RefSeq Status:
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39333,869,642 - 33,898,473 (-)NCBI
GRCm38333,819,904 - 33,844,323 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_080498   ⟸   NM_026222
- UniProtKB: Q8CDG6 (UniProtKB/Swiss-Prot),   Q9D5Y1 (UniProtKB/Swiss-Prot),   Q3TQ36 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006535561   ⟸   XM_006535498
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006535562   ⟸   XM_006535499
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006535563   ⟸   XM_006535500
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_011247988   ⟸   XM_011249686
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: ENSMUSP00000029222   ⟸   ENSMUST00000029222

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9D5Y1-F1-model_v2 AlphaFold Q9D5Y1 1-937 view protein structure

Promoters
RGD ID:6833541
Promoter ID:MM_KWN:34028
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   BoneMarrow_2Hour,   Brain,   Kidney,   MEF_B4,   MEF_B6
Transcripts:NM_026222,   OTTMUST00000065476,   OTTMUST00000065477,   UC008OXJ.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36333,743,036 - 33,743,536 (-)MPROMDB
RGD ID:6880466
Promoter ID:EPDNEW_M3684
Type:initiation region
Name:Ccdc39_1
Description:Mus musculus coiled-coil domain containing 39 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38333,844,272 - 33,844,332EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1289263 AgrOrtholog
Ensembl Genes ENSMUSG00000027676 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSMUSP00000029222 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000029222 ENTREZGENE, UniProtKB/Swiss-Prot
InterPro CCDC39 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:51938 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:1289263 ENTREZGENE
NCBI Gene 51938 ENTREZGENE
PANTHER PTHR18962 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ccdc39 PhenoGen
UniProt CCD39_MOUSE UniProtKB/Swiss-Prot
  Q3TQ36 ENTREZGENE, UniProtKB/TrEMBL
  Q8CDG6 ENTREZGENE
  Q8CF19_MOUSE UniProtKB/TrEMBL
  Q9D5Y1 ENTREZGENE
UniProt Secondary B2RSM0 UniProtKB/Swiss-Prot
  Q8CDG6 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-04-01 Ccdc39  coiled-coil domain containing 39  AI844750  expressed sequence AI844750  Data Merged 737654 PROVISIONAL