Clxn (calaxin) - 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: Clxn (calaxin) Ictidomys tridecemlineatus
Analyze
Symbol: Clxn
Name: calaxin (Ensembl:EF-hand calcium binding domain 1)
RGD ID: 12568337
Description: ENCODES a protein that exhibits calcium ion binding (inferred); metal ion binding (inferred); INVOLVED IN regulation of cilium movement (inferred); regulation of flagellated sperm motility (inferred); ASSOCIATED WITH genetic disease (ortholog); immunodeficiency 26 (ortholog); Primary Ciliary Dyskinesia 53 (ortholog); FOUND IN cilium (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: EF-hand calcium binding domain 1; EF-hand calcium binding domain 1, transcript variant X1; EF-hand calcium binding domain 1, transcript variant X2; EF-hand calcium-binding domain-containing protein 1; Efcab1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530378,797,027 - 78,808,661 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365903,986,779 - 3,998,530 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365903,986,827 - 3,998,489 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
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

Biological Process

Cellular Component
cilium  (IEA)

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Clxn
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530378,797,027 - 78,808,661 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365903,986,779 - 3,998,530 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365903,986,827 - 3,998,489 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLXN
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38848,710,789 - 48,735,311 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl848,710,789 - 48,735,311 (-)EnsemblGRCh38hg38GRCh38
GRCh37849,623,348 - 49,647,870 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36849,798,520 - 49,810,344 (-)NCBINCBI36Build 36hg18NCBI36
Celera845,614,709 - 45,635,104 (-)NCBICelera
Cytogenetic Map8q11.21NCBI
HuRef845,091,764 - 45,112,108 (-)NCBIHuRef
CHM1_1849,679,835 - 49,700,230 (-)NCBICHM1_1
T2T-CHM13v2.0849,088,639 - 49,113,160 (-)NCBIT2T-CHM13v2.0
Clxn
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391614,724,315 - 14,786,925 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1614,724,470 - 14,799,235 (+)EnsemblGRCm39 Ensembl
GRCm381614,906,224 - 14,969,061 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1614,906,606 - 14,981,371 (+)EnsemblGRCm38mm10GRCm38
MGSCv371614,906,739 - 14,924,615 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361614,820,224 - 14,838,100 (+)NCBIMGSCv36mm8
Celera1615,485,609 - 15,503,486 (+)NCBICelera
Cytogenetic Map16A1NCBI
cM Map1610.09NCBI
Clxn
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81199,410,925 - 99,500,713 (-)NCBIGRCr8
mRatBN7.21185,977,231 - 85,996,561 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1185,983,304 - 85,996,538 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1194,725,999 - 94,739,235 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01187,385,950 - 87,399,180 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01186,440,762 - 86,454,000 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01190,214,563 - 90,234,319 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1190,221,056 - 90,234,286 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01193,267,696 - 93,287,964 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1184,713,805 - 84,727,035 (-)NCBICelera
Cytogenetic Map11q23NCBI
Clxn
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554548,578,068 - 8,591,992 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554548,570,014 - 8,591,904 (-)NCBIChiLan1.0ChiLan1.0
CLXN
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2764,352,177 - 64,373,215 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1840,045,620 - 40,066,631 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0845,144,794 - 45,165,530 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1842,529,560 - 42,550,005 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl842,529,560 - 42,550,005 (-)Ensemblpanpan1.1panPan2
CLXN
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.129941,821 - 964,424 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl29955,631 - 964,507 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha291,368,435 - 1,391,005 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.029998,111 - 1,020,746 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl291,005,818 - 1,020,854 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.129939,944 - 962,492 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0291,166,038 - 1,188,555 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0291,203,459 - 1,226,090 (-)NCBIUU_Cfam_GSD_1.0
CLXN
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl479,378,796 - 79,389,520 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1479,375,487 - 79,387,110 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2486,861,769 - 86,870,580 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CLXN
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1844,841,780 - 44,867,521 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl844,855,482 - 44,866,845 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603997,173,554 - 97,184,711 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Clxn
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247356,781,011 - 6,790,039 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247356,780,869 - 6,813,671 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSSTOT00000005819   ⟹   ENSSTOP00000005205
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049365903,986,779 - 3,998,530 (+)Ensembl
RefSeq Acc Id: ENSSTOT00000031908   ⟹   ENSSTOP00000031422
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049365903,986,779 - 3,998,530 (+)Ensembl
RefSeq Acc Id: XM_005332321   ⟹   XP_005332378
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440530378,797,027 - 78,808,661 (+)NCBI
SpeTri2.0NW_0049365903,986,827 - 3,997,890 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021731041   ⟹   XP_021586716
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440530378,797,027 - 78,808,661 (+)NCBI
SpeTri2.0NW_0049365903,986,827 - 3,998,489 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005332378 (Get FASTA)   NCBI Sequence Viewer  
  XP_021586716 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000005205.2
  ENSSTOP00000031422.1
GenBank Protein KAG3274188 (Get FASTA)   NCBI Sequence Viewer  
  KAG3274189 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: XP_005332378   ⟸   XM_005332321
- UniProtKB: I3M6Q7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_021586716   ⟸   XM_021731041
- UniProtKB: I3M6Q7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSTOP00000031422   ⟸   ENSSTOT00000031908
RefSeq Acc Id: ENSSTOP00000005205   ⟸   ENSSTOT00000005819
Protein Domains
EF-hand


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000005832 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000005819.3 UniProtKB/TrEMBL
  ENSSTOT00000031908.1 UniProtKB/TrEMBL
Gene3D-CATH EF-hand UniProtKB/TrEMBL
InterPro EF-hand-dom_pair UniProtKB/TrEMBL
  EF_Hand_1_Ca_BS UniProtKB/TrEMBL
  EF_hand_dom UniProtKB/TrEMBL
  Recoverin UniProtKB/TrEMBL
NCBI Gene Efcab1 ENTREZGENE
PANTHER EF-HAND CALCIUM-BINDING DOMAIN-CONTAINING PROTEIN 1 UniProtKB/TrEMBL
  PTHR23055 UniProtKB/TrEMBL
Pfam EF-hand_1 UniProtKB/TrEMBL
  EF-hand_7 UniProtKB/TrEMBL
PROSITE EF_HAND_1 UniProtKB/TrEMBL
  EF_HAND_2 UniProtKB/TrEMBL
SMART EFh UniProtKB/TrEMBL
Superfamily-SCOP SSF47473 UniProtKB/TrEMBL
UniProt I3M6Q7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-12-07 Clxn  calaxin  Efcab1  EF-hand calcium binding domain 1  Symbol and/or name change 5135510 APPROVED