LETM1 (leucine zipper and EF-hand containing transmembrane protein 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: LETM1 (leucine zipper and EF-hand containing transmembrane protein 1) Chlorocebus sabaeus
Analyze
Symbol: LETM1
Name: leucine zipper and EF-hand containing transmembrane protein 1
RGD ID: 18658814
Description: ENCODES a protein that exhibits antiporter activity (inferred); calcium ion binding (inferred); calcium:proton antiporter activity (inferred); INVOLVED IN calcium export from the mitochondrion (inferred); calcium ion transport (inferred); cristae formation (inferred); ASSOCIATED WITH cherubism (ortholog); Craniofacial Abnormalities (ortholog); Developmental Disabilities (ortholog); FOUND IN mitochondrial inner membrane (inferred); mitochondrion (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: LETM1 and EF-hand domain-containing protein 1, mitochondrial
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12746,912,882 - 46,954,295 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2746,912,819 - 46,956,164 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660513,289,082 - 3,330,719 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
LETM1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12746,912,882 - 46,954,295 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2746,912,819 - 46,956,164 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660513,289,082 - 3,330,719 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
LETM1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3841,811,479 - 1,856,156 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl41,811,479 - 1,856,156 (-)EnsemblGRCh38hg38GRCh38
GRCh3741,813,206 - 1,857,883 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3641,784,558 - 1,827,772 (-)NCBINCBI36Build 36hg18NCBI36
Build 3441,781,990 - 1,825,205NCBI
Celera41,725,718 - 1,769,826 (-)NCBICelera
Cytogenetic Map4p16.3NCBI
HuRef41,756,076 - 1,799,634 (-)NCBIHuRef
CHM1_141,811,156 - 1,856,557 (-)NCBICHM1_1
T2T-CHM13v2.041,809,954 - 1,854,630 (-)NCBIT2T-CHM13v2.0
Letm1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39533,897,017 - 33,940,061 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl533,897,017 - 33,940,161 (-)EnsemblGRCm39 Ensembl
GRCm38533,739,673 - 33,782,717 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl533,739,673 - 33,782,817 (-)EnsemblGRCm38mm10GRCm38
MGSCv37534,084,001 - 34,125,353 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36534,058,209 - 34,099,561 (-)NCBIMGSCv36mm8
Celera531,217,468 - 31,258,804 (-)NCBICelera
Cytogenetic Map5B2NCBI
cM Map517.83NCBI
Letm1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81481,167,268 - 81,206,776 (+)NCBIGRCr8
mRatBN7.21476,942,647 - 76,982,220 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1476,942,729 - 76,984,904 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1481,395,109 - 81,434,584 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01482,635,714 - 82,675,193 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01479,081,018 - 79,120,498 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01482,227,790 - 82,267,298 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1482,227,708 - 82,267,350 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01482,917,692 - 82,959,167 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41482,637,839 - 82,677,419 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11482,640,229 - 82,679,808 (+)NCBI
Celera1475,866,265 - 75,905,572 (+)NCBICelera
Cytogenetic Map14q21NCBI
Letm1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555141,042,307 - 1,069,114 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555141,040,103 - 1,069,297 (-)NCBIChiLan1.0ChiLan1.0
LETM1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v232,141,769 - 2,187,380 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan142,078,781 - 2,124,399 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v041,953,033 - 1,994,958 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.141,862,788 - 1,897,029 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl41,862,788 - 1,900,901 (-)Ensemblpanpan1.1panPan2
LETM1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1362,268,027 - 62,304,767 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl362,267,708 - 62,302,136 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha364,785,792 - 64,822,554 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0362,743,457 - 62,780,252 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl362,743,480 - 62,778,969 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1362,237,035 - 62,273,781 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0362,440,602 - 62,477,319 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0362,799,711 - 62,836,516 (+)NCBIUU_Cfam_GSD_1.0
Letm1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528567,848,412 - 67,887,970 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647721,550,013 - 21,587,007 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647721,550,104 - 21,589,662 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LETM1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl8898,181 - 926,593 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.18898,178 - 926,500 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.28349,636 - 376,777 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Letm1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475525,604,454 - 25,631,716 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475525,604,636 - 25,631,974 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


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

endocrine system hemolymphoid system nervous system
High
Medium 36 1 47
Low 19 13
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSCSAT00000013748   ⟹   ENSCSAP00000011738
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl2746,912,819 - 46,956,164 (+)Ensembl
RefSeq Acc Id: XM_008018131   ⟹   XP_008016322
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12746,912,897 - 46,954,295 (+)NCBI
Vero_WHO_p1.0NW_0236660513,289,082 - 3,330,719 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008018132   ⟹   XP_008016323
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12746,912,897 - 46,954,295 (+)NCBI
Vero_WHO_p1.0NW_0236660513,289,082 - 3,330,719 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008018133   ⟹   XP_008016324
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12746,912,882 - 46,954,295 (+)NCBI
Vero_WHO_p1.0NW_0236660513,289,082 - 3,330,719 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008018134   ⟹   XP_008016325
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12746,912,899 - 46,954,295 (+)NCBI
Vero_WHO_p1.0NW_0236660513,289,082 - 3,330,719 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_008016322 (Get FASTA)   NCBI Sequence Viewer  
  XP_008016323 (Get FASTA)   NCBI Sequence Viewer  
  XP_008016324 (Get FASTA)   NCBI Sequence Viewer  
  XP_008016325 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000011738
  ENSCSAP00000011738.1
Reference Protein Sequences
RefSeq Acc Id: XP_008016324   ⟸   XM_008018133
- Peptide Label: isoform X3
- UniProtKB: A0A0D9RSZ9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_008016322   ⟸   XM_008018131
- Peptide Label: isoform X1
RefSeq Acc Id: XP_008016323   ⟸   XM_008018132
- Peptide Label: isoform X2
RefSeq Acc Id: XP_008016325   ⟸   XM_008018134
- Peptide Label: isoform X4
RefSeq Acc Id: ENSCSAP00000011738   ⟸   ENSCSAT00000013748


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000015656 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000013748.1 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
  LETM1/MDM38-like UniProtKB/TrEMBL
  LETM1_RBD UniProtKB/TrEMBL
NCBI Gene LETM1 ENTREZGENE
PANTHER MITOCHONDRIAL PROTON/CALCIUM EXCHANGER PROTEIN UniProtKB/TrEMBL
  PTHR14009 UniProtKB/TrEMBL
Pfam LETM1 UniProtKB/TrEMBL
PROSITE EF_HAND_1 UniProtKB/TrEMBL
  EF_HAND_2 UniProtKB/TrEMBL
  LETM1_RBD UniProtKB/TrEMBL
Superfamily-SCOP SSF47473 UniProtKB/TrEMBL
UniProt A0A0D9RSZ9 ENTREZGENE, UniProtKB/TrEMBL