Coch (cochlin) - Rat Genome Database

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Gene: Coch (cochlin) Rattus norvegicus
Analyze
Symbol: Coch
Name: cochlin
RGD ID: 1308536
Description: Predicted to enable collagen binding activity. Predicted to be involved in regulation of cell shape and sensory perception of sound. Predicted to be located in extracellular region. Predicted to be active in extracellular matrix. Human ortholog(s) of this gene implicated in autosomal dominant nonsyndromic deafness 9 and autosomal recessive nonsyndromic deafness 110. Orthologous to human COCH (cochlin); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: coagulation factor C homolog (Limulus polyphemus); coagulation factor C homolog, cochlin (Limulus polyphemus); LOC362735
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8674,766,485 - 74,780,504 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl674,766,419 - 74,780,502 (+)EnsemblGRCr8
mRatBN7.2669,031,139 - 69,045,124 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl669,031,167 - 69,045,109 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx669,453,486 - 69,467,230 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0669,760,133 - 69,773,877 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0669,199,622 - 69,213,366 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0672,359,702 - 72,373,710 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl672,359,791 - 72,373,695 (+)Ensemblrn6Rnor6.0
Rnor_5.0681,924,131 - 81,937,869 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4671,692,946 - 71,697,056 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera667,908,175 - 67,912,285 (+)NCBICelera
RGSC_v3.1671,605,998 - 71,709,462 (+)NCBI
Cytogenetic Map6q23NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2,4-trichloro-5-(2,5-dichlorophenyl)benzene  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,4'-trichlorobiphenyl  (ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2,4-dinitrotoluene  (EXP)
4,4'-sulfonyldiphenol  (ISO)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (EXP)
acrylamide  (ISO)
adefovir pivoxil  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
amitrole  (EXP)
aristolochic acid A  (ISO)
belinostat  (ISO)
benzo[a]pyrene  (EXP,ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
Butylbenzyl phthalate  (ISO)
C60 fullerene  (EXP)
cadmium dichloride  (EXP,ISO)
caffeine  (EXP)
carbamazepine  (ISO)
CGP 52608  (ISO)
chloroacetaldehyde  (ISO)
chlorpyrifos  (ISO)
cidofovir anhydrous  (ISO)
cisplatin  (ISO)
cobalt dichloride  (ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
CU-O LINKAGE  (ISO)
cyclophosphamide  (ISO)
cyclosporin A  (ISO)
diazinon  (EXP)
dicrotophos  (ISO)
diethylstilbestrol  (ISO)
dimethylarsinic acid  (ISO)
dioxygen  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
epoxiconazole  (ISO)
ethanol  (ISO)
folic acid  (ISO)
gallic acid  (ISO)
genistein  (ISO)
ibuprofen  (ISO)
isotretinoin  (ISO)
lead(0)  (ISO)
methimazole  (EXP)
methoxyacetic acid  (EXP)
methylarsonic acid  (ISO)
methylmercury chloride  (EXP,ISO)
mitomycin C  (ISO)
mitoxantrone  (ISO)
Monobutylphthalate  (EXP)
N-Nitrosopyrrolidine  (ISO)
nickel atom  (ISO)
nickel sulfate  (ISO)
ochratoxin A  (ISO)
paclitaxel  (EXP)
paracetamol  (ISO)
PCB138  (ISO)
perfluorohexanesulfonic acid  (ISO)
phenylmercury acetate  (ISO)
potassium bromate  (EXP)
progesterone  (ISO)
SB 431542  (ISO)
scopolamine  (EXP)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sulfadimethoxine  (EXP)
sunitinib  (ISO)
tacrolimus hydrate  (ISO)
titanium dioxide  (ISO)
Tributyltin oxide  (ISO)
trichloroethene  (EXP)
trichostatin A  (ISO)
triphenyl phosphate  (ISO)
triptonide  (ISO)
valproic acid  (ISO)
vorinostat  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. OMIM Disease Annotation Pipeline OMIM Disease Annotation 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
7. Comprehensive gene review and curation RGD comprehensive gene curation
8. Mutations in a novel cochlear gene cause DFNA9, a human nonsyndromic deafness with vestibular dysfunction. Robertson NG, etal., Nat Genet. 1998 Nov;20(3):299-303.
Additional References at PubMed
PMID:11709536   PMID:12477932   PMID:18304733   PMID:18706483   PMID:21073934   PMID:21886777   PMID:22610276   PMID:23020749   PMID:23376485   PMID:23684986  


Genomics

Comparative Map Data
Coch
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8674,766,485 - 74,780,504 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl674,766,419 - 74,780,502 (+)EnsemblGRCr8
mRatBN7.2669,031,139 - 69,045,124 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl669,031,167 - 69,045,109 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx669,453,486 - 69,467,230 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0669,760,133 - 69,773,877 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0669,199,622 - 69,213,366 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0672,359,702 - 72,373,710 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl672,359,791 - 72,373,695 (+)Ensemblrn6Rnor6.0
Rnor_5.0681,924,131 - 81,937,869 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4671,692,946 - 71,697,056 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera667,908,175 - 67,912,285 (+)NCBICelera
RGSC_v3.1671,605,998 - 71,709,462 (+)NCBI
Cytogenetic Map6q23NCBI
COCH
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381430,874,559 - 30,895,615 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1430,874,438 - 30,895,065 (+)Ensemblhg38GRCh38
GRCh371431,343,765 - 31,359,824 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361430,413,516 - 30,429,573 (+)NCBIBuild 36Build 36hg18NCBI36
Build 341430,413,515 - 30,429,573NCBI
Celera1411,209,192 - 11,225,274 (+)NCBICelera
Cytogenetic Map14q12NCBI
HuRef1411,460,861 - 11,476,943 (+)NCBIHuRef
CHM1_11431,342,916 - 31,358,998 (+)NCBICHM1_1
T2T-CHM13v2.01425,072,046 - 25,093,101 (+)NCBIT2T-CHM13v2.0
Coch
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391251,640,156 - 51,652,558 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1251,640,124 - 51,652,554 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381251,593,283 - 51,606,619 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1251,593,341 - 51,605,771 (+)Ensemblmm10GRCm38
MGSCv371252,694,442 - 52,706,760 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361252,515,075 - 52,527,393 (+)NCBIMGSCv36mm8
Celera1252,896,695 - 52,909,012 (+)NCBICelera
Cytogenetic Map12B3NCBI
cM Map1222.11NCBI
Coch
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540929,639,274 - 29,650,874 (-)Ensembl
ChiLan1.0NW_00495540929,639,274 - 29,650,389 (-)NCBIChiLan1.0ChiLan1.0
COCH
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21532,201,552 - 32,217,707 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11431,418,054 - 31,437,661 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01411,649,072 - 11,665,231 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11429,848,611 - 29,864,662 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1429,848,611 - 29,868,943 (+)EnsemblpanPan2panpan1.1
COCH
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1810,215,101 - 10,230,017 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl810,214,536 - 10,233,550 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha810,141,496 - 10,159,279 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0810,316,037 - 10,333,827 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl810,316,040 - 10,334,496 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1810,000,301 - 10,018,042 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0810,076,429 - 10,094,218 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0810,351,979 - 10,369,756 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Coch
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864042,111,312 - 42,127,606 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364945,617,016 - 5,633,083 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049364945,617,201 - 5,633,500 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
COCH
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl768,576,153 - 68,594,077 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1768,580,124 - 68,595,142 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
COCH
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl247,734,850 - 7,750,814 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Coch
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248201,366,384 - 1,381,099 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046248201,367,582 - 1,381,630 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Coch
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1765,024,516 - 65,038,763 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Coch
34 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:20
Count of miRNA genes:16
Interacting mature miRNAs:20
Transcripts:ENSRNOT00000007365
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
9590290Uminl2Urine mineral level QTL 23.960.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)64451097489510974Rat
2293088Iddm28Insulin dependent diabetes mellitus QTL 285.21blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)668767270135411972Rat
4889933Bss88Bone structure and strength QTL 883.8tibia size trait (VT:0100001)tibia total bone volume (CMO:0001724)65368492198684921Rat
634307Bp141Blood pressure QTL 1414arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)64095756485957564Rat
1331743Uae28Urinary albumin excretion QTL 284.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)64515378690153786Rat
5684992Bmd83Bone mineral density QTL 824.8tibia mineral mass (VT:1000283)bone mineral content (CMO:0001554)65368492198684921Rat
1331779Rf38Renal function QTL 382.876kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)63118500276185002Rat
4145119Mcs25Mammary carcinoma susceptibility QTL 250.0001mammary gland integrity trait (VT:0010552)ratio of deaths to total study population during a period of time (CMO:0001023)671278722116278722Rat
70176Mcsm1Mammary carcinoma susceptibility modifier QTL 1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)664367996109367996Rat
1558641Cm47Cardiac mass QTL 472.90.001heart mass (VT:0007028)heart wet weight (CMO:0000069)66345744194939581Rat
737827Hcar11Hepatocarcinoma resistance QTL 114.4liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)646050607116278722Rat
724513Uae14Urinary albumin excretion QTL 146.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)64604735391047353Rat
2293839Kiddil2Kidney dilation QTL 24.8kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62661831486868070Rat
1576309Emca7Estrogen-induced mammary cancer QTL 74mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)620859430113082285Rat
9590140Scort4Serum corticosterone level QTL 414.490.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)64451097489510974Rat
2301964Bp323Blood pressure QTL 3234.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)6186868070Rat
9590306Scort18Serum corticosterone level QTL 182.880.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)64451097489510974Rat
1578665Bss16Bone structure and strength QTL 164.4femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)63332884178328841Rat
2293841Kiddil4Kidney dilation QTL 44.4kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62661831486868070Rat
4889848Pur25Proteinuria QTL 25140.003urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)66303731995934232Rat
1641898Colcr4Colorectal carcinoma resistance QTL43.710.0007intestine integrity trait (VT:0010554)well differentiated malignant colorectal tumor surface area measurement (CMO:0002077)63093763275937632Rat
1578668Bmd14Bone mineral density QTL 143.8femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)63332884178328841Rat
6893340Cm77Cardiac mass QTL 770.260.57heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)63902865986867923Rat
5684963Bss99Bone structure and strength QTL 993.1tibia area (VT:1000281)tibia area measurement (CMO:0001382)65368492198684921Rat
1300143Rf14Renal function QTL 142.92renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)64016318385163183Rat
6893332Cm74Cardiac mass QTL 740.40.64heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)66345744194939581Rat

Markers in Region
RH128933  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2669,044,896 - 69,045,092 (+)MAPPERmRatBN7.2
Rnor_6.0672,373,483 - 72,373,678NCBIRnor6.0
Rnor_5.0681,937,642 - 81,937,837UniSTSRnor5.0
RGSC_v3.4671,706,113 - 71,706,308UniSTSRGSC3.4
Celera667,920,696 - 67,920,891UniSTS
RH 3.4 Map31524.0UniSTS
Cytogenetic Map6q22UniSTS
RH143184  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2669,029,333 - 69,029,603 (+)MAPPERmRatBN7.2
Rnor_6.0672,357,958 - 72,358,227NCBIRnor6.0
Rnor_5.0681,922,367 - 81,922,636UniSTSRnor5.0
RGSC_v3.4671,691,142 - 71,691,411UniSTSRGSC3.4
Celera667,906,371 - 67,906,640UniSTS
RH 3.4 Map6508.4UniSTS
Cytogenetic Map6q22UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
15 9 64 148 75 74 43 57 43 6 281 145 4 133 70 86 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000007365   ⟹   ENSRNOP00000007365
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl674,766,535 - 74,780,502 (+)Ensembl
mRatBN7.2 Ensembl669,031,167 - 69,045,109 (+)Ensembl
Rnor_6.0 Ensembl672,359,791 - 72,373,695 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000107310   ⟹   ENSRNOP00000080257
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl674,766,512 - 74,780,502 (+)Ensembl
mRatBN7.2 Ensembl669,032,760 - 69,045,109 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000129330   ⟹   ENSRNOP00000112568
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl674,766,419 - 74,780,501 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000165798   ⟹   ENSRNOP00000110931
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl674,767,200 - 74,780,502 (+)Ensembl
RefSeq Acc Id: NM_001108710   ⟹   NP_001102180
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8674,766,547 - 74,780,492 (+)NCBI
mRatBN7.2669,031,167 - 69,045,110 (+)NCBI
Rnor_6.0672,359,762 - 72,363,872 (+)NCBI
Rnor_5.0681,924,131 - 81,937,869 (+)NCBI
RGSC_v3.4671,692,946 - 71,697,056 (+)RGD
Celera667,908,175 - 67,912,285 (+)RGD
Sequence:
RefSeq Acc Id: XM_063262102   ⟹   XP_063118172
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8674,766,524 - 74,780,504 (+)NCBI
RefSeq Acc Id: XM_063262103   ⟹   XP_063118173
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8674,766,485 - 74,780,504 (+)NCBI
RefSeq Acc Id: NP_001102180   ⟸   NM_001108710
- Peptide Label: precursor
- UniProtKB: F7FPJ4 (UniProtKB/TrEMBL),   B1H259 (UniProtKB/TrEMBL),   A0A9K3Y6Q1 (UniProtKB/TrEMBL),   A0A8I5ZPB6 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000007365   ⟸   ENSRNOT00000007365
Ensembl Acc Id: ENSRNOP00000080257   ⟸   ENSRNOT00000107310
RefSeq Acc Id: XP_063118173   ⟸   XM_063262103
- Peptide Label: isoform X2
- UniProtKB: A0A8I5ZPB6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063118172   ⟸   XM_063262102
- Peptide Label: isoform X1
- UniProtKB: A0A9K3Y6Q1 (UniProtKB/TrEMBL),   B1H259 (UniProtKB/TrEMBL),   F7FPJ4 (UniProtKB/TrEMBL),   A0A8I5ZPB6 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000112568   ⟸   ENSRNOT00000129330
Ensembl Acc Id: ENSRNOP00000110931   ⟸   ENSRNOT00000165798
Protein Domains
LCCL   VWFA

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B1H259-F1-model_v2 AlphaFold B1H259 1-552 view protein structure

Transcriptome

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

Promoters
RGD ID:13694587
Promoter ID:EPDNEW_R5109
Type:single initiation site
Name:Coch_1
Description:cochlin
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0672,359,778 - 72,359,838EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308536 AgrOrtholog
BioCyc Gene G2FUF-37588 BioCyc
Ensembl Genes ENSRNOG00000005286 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000007365 ENTREZGENE
  ENSRNOT00000007365.9 UniProtKB/TrEMBL
  ENSRNOT00000107310.2 UniProtKB/TrEMBL
  ENSRNOT00000129330 ENTREZGENE
  ENSRNOT00000129330.1 UniProtKB/TrEMBL
  ENSRNOT00000165798 ENTREZGENE
  ENSRNOT00000165798.1 UniProtKB/TrEMBL
Gene3D-CATH 2.170.130.20 UniProtKB/TrEMBL
  3.40.50.410 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7367398 IMAGE-MGC_LOAD
InterPro CRISP-LCCL_domain UniProtKB/TrEMBL
  ECM_Assembly_Org UniProtKB/TrEMBL
  LCCL UniProtKB/TrEMBL
  LCCL_sf UniProtKB/TrEMBL
  VWF_A UniProtKB/TrEMBL
  vWFA_dom_sf UniProtKB/TrEMBL
KEGG Report rno:362735 UniProtKB/TrEMBL
MGC_CLONE MGC:188242 IMAGE-MGC_LOAD
NCBI Gene 362735 ENTREZGENE
PANTHER COLLAGEN ALPHA UniProtKB/TrEMBL
  LCCL DOMAIN PROTEIN (AFU_ORTHOLOGUE AFUA_5G08630) UniProtKB/TrEMBL
  LCCL DOMAIN PROTEIN (AFU_ORTHOLOGUE AFUA_5G08630) UniProtKB/TrEMBL
  PTHR24020:SF36 UniProtKB/TrEMBL
Pfam LCCL UniProtKB/TrEMBL
  VWA UniProtKB/TrEMBL
PhenoGen Coch PhenoGen
PRINTS VWFADOMAIN UniProtKB/TrEMBL
PROSITE LCCL UniProtKB/TrEMBL
  VWFA UniProtKB/TrEMBL
RatGTEx ENSRNOG00000005286 RatGTEx
SMART LCCL UniProtKB/TrEMBL
  VWA UniProtKB/TrEMBL
Superfamily-SCOP LCCL UniProtKB/TrEMBL
  SSF53300 UniProtKB/TrEMBL
UniProt A0A8I5ZPB6 ENTREZGENE, UniProtKB/TrEMBL
  A0A9K3Y6Q1 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0LJ20_RAT UniProtKB/TrEMBL
  A0ABK0M8U6_RAT UniProtKB/TrEMBL
  A6HBH2_RAT UniProtKB/TrEMBL
  B1H259 ENTREZGENE, UniProtKB/TrEMBL
  F7FPJ4 ENTREZGENE
UniProt Secondary F7FPJ4 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-05-29 Coch  cochlin  Coch  coagulation factor C homolog, cochlin (Limulus polyphemus)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-24 Coch  coagulation factor C homolog, cochlin (Limulus polyphemus)  Coch  coagulation factor C homolog (Limulus polyphemus)   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Coch  coagulation factor C homolog (Limulus polyphemus)   Coch_predicted  coagulation factor C homolog (Limulus polyphemus) (predicted)  'predicted' is removed 2292626 APPROVED