Clhc1 (clathrin heavy chain linker domain containing 1) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Clhc1 (clathrin heavy chain linker domain containing 1) Chinchilla lanigera
Analyze
Symbol: Clhc1
Name: clathrin heavy chain linker domain containing 1
RGD ID: 9032342
Description: ASSOCIATED WITH genetic disease (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: clathrin heavy chain linker domain-containing protein 1
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
NCBI Annotation Information: Annotation category: partial on reference assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542427,843,235 - 27,921,962 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542427,825,865 - 27,923,223 (+)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species

Genomics

Comparative Map Data
Clhc1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542427,843,235 - 27,921,962 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542427,825,865 - 27,923,223 (+)NCBIChiLan1.0ChiLan1.0
CLHC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38255,172,547 - 55,232,563 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl255,172,547 - 55,232,563 (-)EnsemblGRCh38hg38GRCh38
GRCh37255,399,683 - 55,459,699 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36255,256,289 - 55,312,953 (-)NCBINCBI36Build 36hg18NCBI36
Celera255,240,204 - 55,300,225 (-)NCBICelera
Cytogenetic Map2p16.1NCBI
HuRef255,134,728 - 55,194,454 (-)NCBIHuRef
CHM1_1255,329,751 - 55,389,756 (-)NCBICHM1_1
T2T-CHM13v2.0255,169,784 - 55,229,793 (-)NCBIT2T-CHM13v2.0
Clhc1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391129,497,950 - 29,528,360 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1129,497,950 - 29,528,367 (+)EnsemblGRCm39 Ensembl
GRCm381129,547,950 - 29,578,360 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1129,547,950 - 29,578,367 (+)EnsemblGRCm38mm10GRCm38
MGSCv371129,447,950 - 29,478,352 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361129,447,950 - 29,478,350 (+)NCBIMGSCv36mm8
Celera1131,909,229 - 31,939,356 (+)NCBICelera
Cytogenetic Map11A3.3NCBI
cM Map1116.79NCBI
Clhc1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr814107,488,983 - 107,529,667 (+)NCBIGRCr8
mRatBN7.214103,288,116 - 103,328,725 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl14103,288,134 - 103,328,715 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx14107,627,645 - 107,668,648 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.014108,861,138 - 108,901,939 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.014105,333,567 - 105,374,368 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.014113,968,563 - 114,008,015 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl14113,968,563 - 114,008,000 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.014113,634,925 - 113,673,634 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.414110,561,609 - 110,602,190 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.114110,587,955 - 110,628,536 (+)NCBI
Celera14102,164,678 - 102,205,291 (+)NCBICelera
Cytogenetic Map14q22NCBI
CLHC1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21271,093,739 - 71,155,256 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12A71,097,691 - 71,159,208 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02A55,329,248 - 55,389,678 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12A56,470,045 - 56,530,311 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A56,470,051 - 56,530,297 (-)Ensemblpanpan1.1panPan2
CLHC1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11056,100,740 - 56,132,848 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1056,100,753 - 56,133,103 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1056,057,467 - 56,089,577 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01057,104,780 - 57,136,902 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1057,104,793 - 57,136,850 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11056,806,279 - 56,838,079 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01057,084,577 - 57,117,306 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01057,375,692 - 57,407,787 (-)NCBIUU_Cfam_GSD_1.0
Clhc1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629226,941,165 - 26,981,157 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364911,596,051 - 1,623,183 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364911,595,917 - 1,630,077 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLHC1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl385,992,634 - 86,046,908 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1385,992,307 - 86,046,910 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2390,776,515 - 90,831,108 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CLHC1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11451,667,176 - 51,731,969 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1451,677,094 - 51,732,116 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604559,984,461 - 60,052,664 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Clhc1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248336,311,877 - 6,375,045 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSCLAT00000017859   ⟹   ENSCLAP00000017684
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495542427,843,235 - 27,921,962 (+)Ensembl
RefSeq Acc Id: XM_005385783   ⟹   XP_005385840
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495542427,825,865 - 27,923,223 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005385840 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000017684
  ENSCLAP00000017684.1
Reference Protein Sequences
RefSeq Acc Id: XP_005385840   ⟸   XM_005385783
- Sequence:
RefSeq Acc Id: ENSCLAP00000017684   ⟸   ENSCLAT00000017859
Protein Domains
Translin-associated factor X-interacting protein


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000012126 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000017859 ENTREZGENE
  ENSCLAT00000017859.1 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.30 UniProtKB/TrEMBL
InterPro ARM-type_fold UniProtKB/TrEMBL
  Clathrin_H-chain_linker UniProtKB/TrEMBL
  CLHC1 UniProtKB/TrEMBL
  TSNAXIP1_N UniProtKB/TrEMBL
NCBI Gene Clhc1 ENTREZGENE
PANTHER CLATHRIN HEAVY CHAIN RELATED UniProtKB/TrEMBL
  PTHR10292:SF11 UniProtKB/TrEMBL
Pfam Clathrin_H_link UniProtKB/TrEMBL
  TSNAXIP1_N UniProtKB/TrEMBL
PIRSF Clathrin_H-chain-rel UniProtKB/TrEMBL
Superfamily-SCOP SSF48371 UniProtKB/TrEMBL
UniProt A0A8C2VPB7_CHILA UniProtKB/TrEMBL