Cltc (clathrin heavy chain) - Rat Genome Database

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Gene: Cltc (clathrin heavy chain) Rattus norvegicus
Analyze
Symbol: Cltc
Name: clathrin heavy chain
RGD ID: 2364
Description: Enables several functions, including ankyrin binding activity; heat shock protein binding activity; and protein serine/threonine kinase binding activity. Involved in Golgi organization; endocytosis; and mitotic cell cycle. Located in T-tubule and spindle. Part of clathrin coat. Is extrinsic component of synaptic vesicle membrane. Human ortholog(s) of this gene implicated in autosomal dominant intellectual developmental disorder 56. Orthologous to human CLTC (clathrin heavy chain); PARTICIPATES IN clathrin-dependent synaptic vesicle endocytosis; FasL mediated signaling pathway; endocytosis pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: clathrin heavy chain 1; clathrin, heavy chain (Hc); clathrin, heavy polypeptide (Hc)
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Candidate Gene For: Bp309
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81072,014,984 - 72,073,308 (-)NCBIGRCr8
mRatBN7.21071,517,661 - 71,574,591 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1071,517,663 - 71,573,737 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1076,138,748 - 76,194,184 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01075,643,625 - 75,699,059 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01071,108,176 - 71,163,608 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01074,014,560 - 74,070,578 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1074,014,562 - 74,070,266 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01076,029,919 - 76,085,924 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41074,976,825 - 75,032,529 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11074,991,194 - 75,046,899 (-)NCBI
Celera1070,438,273 - 70,493,354 (-)NCBICelera
Cytogenetic Map10q26NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-hydroxy-17-methylestra-4,9,11-trien-3-one  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,4-dinitrotoluene  (EXP)
2-amino-14,16-dimethyloctadecan-3-ol  (ISO)
2-ethoxyethanol  (EXP)
2-methoxyethanol  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (ISO)
4,4'-sulfonyldiphenol  (EXP)
5-aza-2'-deoxycytidine  (ISO)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (EXP)
acrylamide  (ISO)
aflatoxin B1  (ISO)
amitrole  (EXP)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
aristolochic acid A  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
benzene  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol B  (ISO)
bisphenol F  (EXP)
bleomycin A2  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
choline  (ISO)
cisplatin  (ISO)
crocidolite asbestos  (ISO)
deguelin  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP)
dioxygen  (ISO)
doxorubicin  (ISO)
entacapone  (EXP)
enzyme inhibitor  (ISO)
ethanol  (ISO)
fenvalerate  (EXP)
flutamide  (EXP)
folic acid  (ISO)
FR900359  (ISO)
fulvestrant  (ISO)
fumonisin B1  (ISO)
gentamycin  (EXP)
irinotecan  (ISO)
ivermectin  (ISO)
L-methionine  (ISO)
mercury atom  (ISO)
mercury(0)  (ISO)
methimazole  (EXP)
methylparaben  (ISO)
nefazodone  (EXP)
nilotinib  (ISO)
paracetamol  (EXP,ISO)
PCB138  (EXP)
perfluorooctanoic acid  (ISO)
phenobarbital  (EXP)
pyrogallol  (ISO)
resveratrol  (ISO)
rimonabant  (ISO)
rotenone  (ISO)
Salinomycin  (ISO)
serpentine asbestos  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (EXP,ISO)
sodium fluoride  (ISO)
succimer  (ISO)
sulfadimethoxine  (EXP)
tamoxifen  (ISO)
temozolomide  (ISO)
tetrachloromethane  (ISO)
thapsigargin  (ISO)
thioacetamide  (EXP)
thiram  (ISO)
tolcapone  (EXP)
tremolite asbestos  (ISO)
triptonide  (ISO)
valproic acid  (EXP,ISO)
vinclozolin  (EXP)
Yessotoxin  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. A highly phosphorylated subpopulation of insulin-like growth factor II/mannose 6-phosphate receptors is concentrated in a clathrin-enriched plasma membrane fraction. Corvera S, etal., Proc Natl Acad Sci U S A. 1988 Oct;85(20):7567-71.
2. Plk2 attachment to NSF induces homeostatic removal of GluA2 during chronic overexcitation. Evers DM, etal., Nat Neurosci. 2010 Oct;13(10):1199-207. doi: 10.1038/nn.2624. Epub 2010 Aug 29.
3. 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.
4. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
5. Clathrin-mediated endocytosis is the dominant mechanism of vesicle retrieval at hippocampal synapses. Granseth B, etal., Neuron. 2006 Sep 21;51(6):773-86. doi: 10.1016/j.neuron.2006.08.029.
6. Splice variants of intersectin are components of the endocytic machinery in neurons and nonneuronal cells. Hussain NK, etal., J Biol Chem. 1999 May 28;274(22):15671-7.
7. Identification of Ca2+-dependent binding partners for the neuronal calcium sensor protein neurocalcin delta: interaction with actin, clathrin and tubulin. Ivings L, etal., Biochem J 2002 May 1;363(Pt 3):599-608.
8. KEGG: Kyoto Encyclopedia of Genes and Genomes KEGG
9. Clathrin heavy chain: molecular cloning and complete primary structure. Kirchhausen T, etal., Proc Natl Acad Sci U S A 1987 Dec;84(24):8805-9.
10. A PH domain within OCRL bridges clathrin-mediated membrane trafficking to phosphoinositide metabolism. Mao Y, etal., EMBO J. 2009 Jul 8;28(13):1831-42. doi: 10.1038/emboj.2009.155. Epub 2009 Jun 18.
11. Clathrin-coated vesicles in nervous tissue are involved primarily in synaptic vesicle recycling. Maycox PR, etal., J Cell Biol. 1992 Sep;118(6):1379-88.
12. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
13. A requirement for ankyrin binding to clathrin during coated pit budding. Michaely P, etal., J Biol Chem. 1999 Dec 10;274(50):35908-13.
14. A conserved clathrin assembly motif essential for synaptic vesicle endocytosis. Morgan JR, etal., J Neurosci. 2000 Dec 1;20(23):8667-76.
15. Isolation and characterization of distinct domains of sarcolemma and T-tubules from rat skeletal muscle. Munoz P, etal., Biochem J. 1995 Apr 1;307 ( Pt 1):273-80.
16. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
17. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
18. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
19. A role for clathrin in reassembly of the Golgi apparatus. Radulescu AE, etal., Mol Biol Cell. 2007 Jan;18(1):94-105. Epub 2006 Oct 25.
20. A motif in the clathrin heavy chain required for the Hsc70/auxilin uncoating reaction. Rapoport I, etal., Mol Biol Cell. 2008 Jan;19(1):405-13. Epub 2007 Oct 31.
21. GOA pipeline RGD automated data pipeline
22. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
23. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
24. The epsins define a family of proteins that interact with components of the clathrin coat and contain a new protein module. Rosenthal JA, etal., J Biol Chem 1999 Nov 26;274(48):33959-65.
25. Clathrin is required for the function of the mitotic spindle. Royle SJ, etal., Nature. 2005 Apr 28;434(7037):1152-7.
26. Synaptic vesicle endocytosis. Saheki Y and De Camilli P, Cold Spring Harb Perspect Biol. 2012 Sep 1;4(9):a005645. doi: 10.1101/cshperspect.a005645.
27. Possible involvement of clathrin in neuritogenesis induced by a protease inhibitor (benzyloxycarbonyl-Leu-Leu-Leu-aldehyde) in PC12 cells. Saito Y, etal., J Biochem. 1992 Oct;112(4):448-55.
28. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
29. Enthoprotin: a novel clathrin-associated protein identified through subcellular proteomics. Wasiak S, etal., J Cell Biol 2002 Sep 2;158(5):855-62. Epub 2002 Sep 03.
30. Composition of isolated synaptic boutons reveals the amounts of vesicle trafficking proteins. Wilhelm BG, etal., Science. 2014 May 30;344(6187):1023-8. doi: 10.1126/science.1252884.
Additional References at PubMed
PMID:4066749   PMID:9694653   PMID:9827808   PMID:10908605   PMID:11382783   PMID:11423532   PMID:11756460   PMID:11879655   PMID:12234931   PMID:12429846   PMID:12519789   PMID:12732633  
PMID:14651853   PMID:14985334   PMID:15953416   PMID:16025302   PMID:16210410   PMID:16854843   PMID:16903783   PMID:17007823   PMID:17634366   PMID:17762867   PMID:18027972   PMID:18504258  
PMID:18529014   PMID:18675457   PMID:19056867   PMID:19199708   PMID:19478182   PMID:19503793   PMID:19581412   PMID:19946888   PMID:20065094   PMID:20080761   PMID:20458337   PMID:21266579  
PMID:21278753   PMID:21297582   PMID:21307259   PMID:21362503   PMID:21423176   PMID:21499258   PMID:22082260   PMID:22120110   PMID:22681889   PMID:22871113   PMID:22977238   PMID:23106098  
PMID:23376485   PMID:23509262   PMID:23533145   PMID:23785143   PMID:23979707   PMID:24251095   PMID:24625528   PMID:24769233   PMID:24948816   PMID:24951588   PMID:25810514   PMID:26005850  
PMID:26316108   PMID:26437238   PMID:26756164   PMID:26771574   PMID:29476059   PMID:32357304   PMID:33450132  


Genomics

Comparative Map Data
Cltc
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81072,014,984 - 72,073,308 (-)NCBIGRCr8
mRatBN7.21071,517,661 - 71,574,591 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1071,517,663 - 71,573,737 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1076,138,748 - 76,194,184 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01075,643,625 - 75,699,059 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01071,108,176 - 71,163,608 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01074,014,560 - 74,070,578 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1074,014,562 - 74,070,266 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01076,029,919 - 76,085,924 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41074,976,825 - 75,032,529 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11074,991,194 - 75,046,899 (-)NCBI
Celera1070,438,273 - 70,493,354 (-)NCBICelera
Cytogenetic Map10q26NCBI
CLTC
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381759,619,895 - 59,696,956 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1759,619,680 - 59,696,956 (+)EnsemblGRCh38hg38GRCh38
GRCh371757,697,256 - 57,774,317 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361755,051,832 - 55,129,099 (+)NCBINCBI36Build 36hg18NCBI36
Build 341755,052,037 - 55,127,254NCBI
Celera1754,160,824 - 54,238,068 (+)NCBICelera
Cytogenetic Map17q23.1NCBI
HuRef1753,069,465 - 53,146,980 (+)NCBIHuRef
CHM1_11757,762,115 - 57,839,338 (+)NCBICHM1_1
T2T-CHM13v2.01760,488,657 - 60,565,708 (+)NCBIT2T-CHM13v2.0
Cltc
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391186,585,178 - 86,648,637 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1186,585,177 - 86,648,391 (-)EnsemblGRCm39 Ensembl
GRCm381186,694,352 - 86,757,567 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1186,694,351 - 86,757,565 (-)EnsemblGRCm38mm10GRCm38
MGSCv371186,508,155 - 86,570,994 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361186,510,848 - 86,573,687 (-)NCBIMGSCv36mm8
Celera1196,310,083 - 96,376,089 (-)NCBICelera
Cytogenetic Map11CNCBI
cM Map1151.82NCBI
Cltc
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554513,380,304 - 3,445,973 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554513,380,304 - 3,445,973 (-)NCBIChiLan1.0ChiLan1.0
CLTC
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21975,779,299 - 75,857,191 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11780,593,228 - 80,668,583 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01753,685,865 - 53,761,008 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11758,528,630 - 58,603,636 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1758,529,750 - 58,603,636 (+)Ensemblpanpan1.1panPan2
CLTC
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1934,116,344 - 34,183,023 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl934,116,634 - 34,182,719 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha933,348,834 - 33,415,377 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0934,925,162 - 34,993,363 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl934,925,099 - 34,993,353 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1933,708,907 - 33,777,008 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0933,995,028 - 34,063,165 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0934,082,574 - 34,149,196 (+)NCBIUU_Cfam_GSD_1.0
Cltc
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560233,348,899 - 33,415,096 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364903,657,242 - 3,726,274 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364903,659,682 - 3,726,222 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLTC
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1235,848,540 - 35,926,015 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11235,848,894 - 35,926,028 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21236,559,496 - 36,602,612 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Sscrofa10.21237,145,840 - 37,192,985 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CLTC
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11633,751,641 - 33,826,415 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1633,752,556 - 33,799,102 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660774,541,834 - 4,618,343 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cltc
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248711,439,838 - 1,510,911 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248711,439,975 - 1,507,514 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cltc
253 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:501
Count of miRNA genes:247
Interacting mature miRNAs:291
Transcripts:ENSRNOT00000005987
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
1549846Scl47Serum cholesterol level QTL 473.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)105057470795574707Rat
1578779Tcas10Tongue tumor susceptibility QTL 103.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)103129743976297439Rat
631565Hcuc4Hepatic copper content QTL 44.15liver copper amount (VT:0003065)liver copper weight to liver dry weight ratio (CMO:0001512)106694181373452992Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)102652195798003205Rat
2293669Bmd33Bone mineral density QTL 334.50.0001femur strength trait (VT:0010010)femoral neck polar moment of inertia (CMO:0001670)104944455181709989Rat
631552Vetf2Vascular elastic tissue fragility QTL 24.50.0002aorta elastic tissue integrity trait (VT:0010556)artery internal elastic lamina non-tumorous lesion count (CMO:0001913)104114263386142633Rat
61449Ciaa2CIA Autoantibody QTL 27.1blood autoantibody amount (VT:0003725)calculated serum anti-type 2 collagen antibody titer (CMO:0001279)1063221094107211142Rat
12903245Cm110Cardiac mass QTL 1100.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)107111521772606468Rat
12903246Cm111Cardiac mass QTL 1110.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)107111521772606468Rat
12903247Cm112Cardiac mass QTL 1120.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)107111521772606468Rat
631557Bp136Blood pressure QTL 1360.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)103063205375632053Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
1298078Stresp5Stress response QTL 52.990.00025blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1042045676104670812Rat
2293679Bmd30Bone mineral density QTL 303.50.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)104944455181709989Rat
1549831Bss6Bone structure and strength QTL 64lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)1057576521102576521Rat
12902615Bw185Body weight QTL 1850.01body mass (VT:0001259)body weight (CMO:0000012)107111521772606468Rat
12903248Am14Aortic mass QTL 140.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)107111521772606468Rat
70164Bw21Body weight QTL 214.360.00005body mass (VT:0001259)body weight (CMO:0000012)105379749498952626Rat
12903249Kidm68Kidney mass QTL 680.02kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)107111521772606468Rat
1579918Bp279Blood pressure QTL 2790.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)107111521772606468Rat
61463Bp12Blood pressure QTL 126.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)104133325886333258Rat
8694173Bw149Body weight QTL 1494.380.001body mass (VT:0001259)body weight gain (CMO:0000420)104444169989441699Rat
2300218Hpcl2Hepatic cholesterol level QTL 2liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)104502965095600334Rat
1554317Bmd4Bone mineral density QTL 49.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)101981604299406971Rat
70171Cari1Carrageenan-induced inflammation QTL 14.90.0005hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)1053797385107211142Rat
724527Bp148Blood pressure QTL 1480.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102845313673453136Rat
2300171Bmd58Bone mineral density QTL 584.90.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)102694462871944628Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101448701189062041Rat
2313103Bss80Bone structure and strength QTL 8020.0001tibia strength trait (VT:1000284)tibia midshaft endosteal cross-sectional area (CMO:0001716)1062057807107057807Rat
2293646Bss25Bone structure and strength QTL 2510.960.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1069738412107211142Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109658275104670812Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)14232313287323132Rat
2300172Bmd57Bone mineral density QTL 579.80.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1069738412107211142Rat
2313105Bss79Bone structure and strength QTL 791.80.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)1062057807107057807Rat
9589030Epfw9Epididymal fat weight QTL 919.240.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)104444169989441699Rat
1357344Bp249Blood pressure QTL 2490.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)106674365598003205Rat
10402859Bp381Blood pressure QTL 3810.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102760646872606468Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014487011107057807Rat
2293652Bmd22Bone mineral density QTL 224.90.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)104944455181709989Rat
70198BpQTLcluster9Blood pressure QTL cluster 92.94arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)104232313287323132Rat
2306970Anxrr22Anxiety related response QTL 225.95fear/anxiety-related behavior trait (VT:1000241)number of periods of voluntary immobility (CMO:0001045)106134527698211570Rat
1359017Hrtrt21Heart rate QTL 212.4heart pumping trait (VT:2000009)heart rate (CMO:0000002)105177294096772940Rat
2293663Bss33Bone structure and strength QTL 339.340.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1069738412107211142Rat
2312672Insul15Insulin level QTL 150.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1057134272102134272Rat
2317029Aia19Adjuvant induced arthritis QTL 192.98joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)1066978955107211142Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102242750090627625Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10615418273453136Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1051770177107211142Rat
2317039Aia6Adjuvant induced arthritis QTL 64.31joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)1066978955107211142Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10180676123Rat
2317043Aia7Adjuvant induced arthritis QTL 73.82joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)103756507982565079Rat
2317042Aia20Adjuvant induced arthritis QTL 203.38joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)103756507982565079Rat
2298481Eau9Experimental allergic uveoretinitis QTL 90.0169uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)106592723382565079Rat
61396Bp9Blood pressure QTL 94.80.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1068420376107211142Rat
70363Bp71Blood pressure QTL 710.04arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)106134527681714865Rat
61402Niddm3Non-insulin dependent diabetes mellitus QTL 34.58blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)106134541382564856Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)1029299504107211142Rat
10450500Bp385Blood pressure QTL 3850.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)107111521771966743Rat
70364Bp72Blood pressure QTL 72arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)105112110096121100Rat
10450498Bp384Blood pressure QTL 3840.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1067750049107211142Rat
6893366Bw106Body weight QTL 1060.30.47body mass (VT:0001259)body weight (CMO:0000012)1070199100107211142Rat
2293698Bss43Bone structure and strength QTL 435.330.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra cross-sectional area (CMO:0001689)1059209888104209888Rat
631530Tls3T-lymphoma susceptibility QTL 300.0001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)105177461295600334Rat
2289985Bp305Blood pressure QTL 305arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)106750210873579767Rat
1354608Cm33Cardiac mass QTL 332.8heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)105480929299809292Rat
1558643Cm44Cardiac mass QTL 444.80.0000368heart mass (VT:0007028)heart wet weight (CMO:0000069)106134527699703528Rat
631535Cm51Cardiac mass QTL 513heart mass (VT:0007028)calculated heart weight (CMO:0000073)105178628291669536Rat
1576319Cia29Collagen induced arthritis QTL 29joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103397392178973921Rat
8552805Bw145Body weight QTL 1452.2body mass (VT:0001259)change in body weight to body weight ratio (CMO:0002216)104194452678307017Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
2293705Bmd25Bone mineral density QTL 257.10.0001femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)104944455181709989Rat
1576308Schws1Schwannoma susceptibility QTL 10.0041nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)1040035094102359817Rat
631269Cia22Collagen induced arthritis QTL 228.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040035094104060283Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014487011104060283Rat
7207811Bmd90Bone mineral density QTL 905.2femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)104944455181709989Rat
1576311Pia26Pristane induced arthritis QTL 26joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103122402675632053Rat
631270Cia23Collagen induced arthritis QTL 233.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040035094104060283Rat
7411614Foco18Food consumption QTL 180.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)104444169989441699Rat
6893336Cm75Cardiac mass QTL 750.10.87heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)106134527699703528Rat
631547Bp87Blood pressure QTL 874.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)104736947092369470Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10635789696121100Rat
2312662Slep8Serum leptin concentration QTL 80.05blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1057134272102134272Rat
2292439Bp309Blood pressure QTL 309arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)107111521771966743Rat
6893342Cm78Cardiac mass QTL 780.10.88heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)104287676679813922Rat
2292441Bp308Blood pressure QTL 308arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102760646872606468Rat
1642980Bp300Blood pressure QTL 300arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1068383129107211142Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102652195798952741Rat
2312668Scl65Serum cholesterol level QTL 650.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1057134272102134272Rat

Markers in Region
RH11769  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21071,517,832 - 71,517,962 (+)MAPPERmRatBN7.2
Rnor_6.01074,014,732 - 74,014,861NCBIRnor6.0
Rnor_5.01076,085,622 - 76,085,752NCBIRnor5.0
RGSC_v3.41074,976,995 - 74,977,124UniSTSRGSC3.4
Celera1070,438,443 - 70,438,572UniSTS
Cytogenetic Map10q26UniSTS
RH25272  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21071,525,312 - 71,525,428 (+)MAPPERmRatBN7.2
Rnor_6.01074,022,211 - 74,022,326NCBIRnor6.0
Rnor_5.01076,078,160 - 76,078,275UniSTSRnor5.0
RGSC_v3.41074,984,474 - 74,984,589UniSTSRGSC3.4
Celera1070,445,922 - 70,446,037UniSTS
Cytogenetic Map10q26UniSTS
RH129507  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21071,519,436 - 71,519,646 (+)MAPPERmRatBN7.2
Rnor_6.01074,016,336 - 74,016,545NCBIRnor6.0
Rnor_5.01076,083,939 - 76,084,148UniSTSRnor5.0
RGSC_v3.41074,978,599 - 74,978,808UniSTSRGSC3.4
Celera1070,440,047 - 70,440,256UniSTS
Cytogenetic Map10q26UniSTS
RH125101  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21071,527,944 - 71,528,203 (+)MAPPERmRatBN7.2
Rnor_6.01074,024,841 - 74,025,099NCBIRnor6.0
Rnor_5.01076,075,387 - 76,075,645UniSTSRnor5.0
RGSC_v3.41074,987,104 - 74,987,362UniSTSRGSC3.4
Celera1070,448,552 - 70,448,810UniSTS
Cytogenetic Map10q26UniSTS


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 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


Ensembl Acc Id: ENSRNOT00000005987   ⟹   ENSRNOP00000005987
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1071,517,663 - 71,558,499 (-)Ensembl
Rnor_6.0 Ensembl1074,014,562 - 74,070,266 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000096168   ⟹   ENSRNOP00000094065
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1071,517,702 - 71,573,510 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000098805   ⟹   ENSRNOP00000077982
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1071,517,707 - 71,573,737 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000111406   ⟹   ENSRNOP00000086473
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1071,517,663 - 71,557,162 (-)Ensembl
RefSeq Acc Id: NM_019299   ⟹   NP_062172
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81072,014,986 - 72,070,691 (-)NCBI
mRatBN7.21071,517,663 - 71,573,370 (-)NCBI
Rnor_6.01074,014,562 - 74,070,266 (-)NCBI
Rnor_5.01076,029,919 - 76,085,924 (+)NCBI
RGSC_v3.41074,976,825 - 75,032,529 (-)RGD
Celera1070,438,273 - 70,493,354 (-)RGD
Sequence:
RefSeq Acc Id: XM_006247108   ⟹   XP_006247170
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81072,014,984 - 72,073,308 (-)NCBI
mRatBN7.21071,517,661 - 71,574,591 (-)NCBI
Rnor_6.01074,014,560 - 74,070,578 (-)NCBI
Rnor_5.01076,029,919 - 76,085,924 (+)NCBI
Sequence:
RefSeq Acc Id: XM_063269683   ⟹   XP_063125753
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81072,016,237 - 72,073,308 (-)NCBI
RefSeq Acc Id: XM_063269684   ⟹   XP_063125754
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81072,016,237 - 72,073,308 (-)NCBI
RefSeq Acc Id: NP_062172   ⟸   NM_019299
- UniProtKB: P11442 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006247170   ⟸   XM_006247108
- Peptide Label: isoform X1
- UniProtKB: P11442 (UniProtKB/Swiss-Prot)
- Sequence:
Ensembl Acc Id: ENSRNOP00000005987   ⟸   ENSRNOT00000005987
Ensembl Acc Id: ENSRNOP00000077982   ⟸   ENSRNOT00000098805
Ensembl Acc Id: ENSRNOP00000086473   ⟸   ENSRNOT00000111406
Ensembl Acc Id: ENSRNOP00000094065   ⟸   ENSRNOT00000096168
RefSeq Acc Id: XP_063125754   ⟸   XM_063269684
- Peptide Label: isoform X3
- UniProtKB: P11442 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: XP_063125753   ⟸   XM_063269683
- Peptide Label: isoform X2
- UniProtKB: P11442 (UniProtKB/Swiss-Prot),   A0A8I6AGZ0 (UniProtKB/TrEMBL)
Protein Domains
Clathrin heavy chain linker core motif

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P11442-F1-model_v2 AlphaFold P11442 1-1675 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:2364 AgrOrtholog
BIND 144371
  144372
  144373
BioCyc Gene G2FUF-23794 BioCyc
Ensembl Genes ENSRNOG00000004291 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000005987.4 UniProtKB/TrEMBL
  ENSRNOT00000096168.1 UniProtKB/TrEMBL
  ENSRNOT00000098805.1 UniProtKB/TrEMBL
  ENSRNOT00000111406.1 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  1.25.40.30 UniProtKB/TrEMBL
  1.25.40.730 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  2.130.10.110 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro ARM-type_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Clathrin_H-chain/VPS_repeat UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Clathrin_H-chain_linker UniProtKB/TrEMBL
  Clathrin_H-chain_linker_core UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Clathrin_H-chain_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Clathrin_H-chain_propeller_rpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Clathrin_heavy_chain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TPR-like_helical_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:54241 UniProtKB/Swiss-Prot
NCBI Gene 54241 ENTREZGENE
PANTHER CLATHRIN HEAVY CHAIN 1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CLATHRIN HEAVY CHAIN RELATED UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Clathrin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Clathrin-link UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Clathrin_H_link UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Clathrin_propel UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cltc PhenoGen
PIRSF Clathrin_H_chain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE CHCR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000004291 RatGTEx
SMART CLH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48371 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF50989 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC217008
UniProt A0A8I5Y9U9_RAT UniProtKB/TrEMBL
  A0A8I6A5W9_RAT UniProtKB/TrEMBL
  A0A8I6AGZ0 ENTREZGENE, UniProtKB/TrEMBL
  A6HHR8_RAT UniProtKB/TrEMBL
  A6HHR9_RAT UniProtKB/TrEMBL
  A6HHS0_RAT UniProtKB/TrEMBL
  CLH1_RAT UniProtKB/Swiss-Prot
  F1M779_RAT UniProtKB/TrEMBL
  P11442 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-01-27 Cltc  clathrin heavy chain  Cltc  clathrin, heavy chain (Hc)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-09 Cltc  clathrin, heavy chain (Hc)  Cltc  clathrin, heavy polypeptide (Hc)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Cltc  clathrin, heavy polypeptide (Hc)      Symbol and Name status set to approved 70586 APPROVED