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Gene: Letm1 (leucine zipper and EF-hand containing transmembrane protein 1) Rattus norvegicus

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Symbol:

Letm1

Name:

leucine zipper and EF-hand containing transmembrane protein 1

RGD ID:

1359678

Description:

Predicted to enable calcium:proton antiporter activity. Predicted to be involved in several processes, including cristae formation; monoatomic cation transmembrane transport; and protein complex oligomerization. Predicted to be located in mitochondrial inner membrane. Predicted to be active in mitochondrion. Orthologous to human LETM1 (leucine zipper and EF-hand containing transmembrane protein 1); INTERACTS WITH 6-propyl-2-thiouracil; amitrole; amphetamine.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

electroneutral mitochondrial K(+)/H(+)exchanger; KHE; LETM1 and EF-hand domain-containing protein 1, mitochondrial; leucine zipper-EF-hand containing transmembrane protein 1; leucine zipper-EF-hand-containing transmembrane protein 1; MGC94466

RGD Orthologs

Alliance Orthologs

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	LETM1 (leucine zipper and EF-hand containing transmembrane protein 1)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Letm1 (leucine zipper-EF-hand containing transmembrane protein 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Letm1 (leucine zipper and EF-hand containing transmembrane protein 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	LETM1 (leucine zipper and EF-hand containing transmembrane protein 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	LETM1 (leucine zipper and EF-hand containing transmembrane protein 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Letm1 (leucine zipper and EF-hand containing transmembrane protein 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	LETM1 (leucine zipper and EF-hand containing transmembrane protein 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	LETM1 (leucine zipper and EF-hand containing transmembrane protein 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Letm1 (leucine zipper and EF-hand containing transmembrane protein 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus rattus (black rat):	Letm1 (leucine zipper and EF-hand containing transmembrane protein 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	LETM1 (leucine zipper and EF-hand containing transmembrane protein 1)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Letm1 (leucine zipper-EF-hand containing transmembrane protein 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	letm1 (leucine zipper-EF-hand containing transmembrane protein 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Saccharomyces cerevisiae (baker's yeast):	MDM38	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Saccharomyces cerevisiae (baker's yeast):	MDM38	Alliance	DIOPT (Ensembl Compara\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	Letm1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	letm-1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Caenorhabditis elegans (roundworm):	letm-1	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Saccharomyces cerevisiae (baker's yeast):	YLH47	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Saccharomyces cerevisiae (baker's yeast):	YLH47	Alliance	DIOPT (Ensembl Compara\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	letm1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	letm1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)

Latest Assembly:

GRCr8 - GRCr8 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	14	81,167,268 - 81,206,776 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	14	81,162,309 - 81,209,459 (+)	Ensembl				GRCr8
mRatBN7.2	14	76,942,647 - 76,982,220 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	14	76,942,729 - 76,984,904 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	14	81,395,109 - 81,434,584 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	14	82,635,714 - 82,675,193 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	14	79,081,018 - 79,120,498 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	14	82,227,790 - 82,267,298 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	14	82,227,708 - 82,267,350 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	14	82,917,692 - 82,959,167 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	14	82,637,839 - 82,677,419 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	14	75,866,265 - 75,905,572 (+)	NCBI		Celera
RGSC_v3.1	14	82,640,229 - 82,679,808 (+)	NCBI
Cytogenetic Map	14	q21	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Craniofacial Abnormalities (ISO)

Developmental Disabilities (ISO)

Ependymomas (ISO)

genetic disease (ISO)

hepatocellular carcinoma (ISO)

intellectual disability (ISO)

LETM1-ASSOCIATED CLINICAL SPECTRUM WITH PREDOMINANT NERVOUS SYSTEM INVOLVEMENT (ISO)

Muscle Hypotonia (ISO)

NEURODEGENERATION, CHILDHOOD-ONSET, WITH MULTISYSTEM INVOLVEMENT DUE TO MITOCHONDRIAL DYSFUNCTION (ISO)

Wittwer Syndrome (ISO)

Wolf-Hirschhorn syndrome (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(1->4)-beta-D-glucan (ISO)

17alpha-ethynylestradiol (ISO)

17beta-estradiol (ISO)

2,3,7,8-tetrachlorodibenzodioxine (ISO)

2,6-dimethoxyphenol (ISO)

5-aza-2'-deoxycytidine (ISO)

6-propyl-2-thiouracil (EXP)

all-trans-retinoic acid (ISO)

amitrole (EXP)

amphetamine (EXP)

aristolochic acid A (ISO)

atrazine (ISO)

benzo[a]pyrene (ISO)

benzo[e]pyrene (ISO)

bisphenol A (EXP,ISO)

bisphenol AF (ISO)

Bisphenol B (ISO)

bisphenol F (ISO)

buspirone (EXP)

Butylbenzyl phthalate (ISO)

cadmium atom (ISO)

cadmium dichloride (ISO)

carbon nanotube (ISO)

chlorpyrifos (ISO)

cobalt dichloride (ISO)

cyclosporin A (EXP)

Dibutyl phosphate (ISO)

dicrotophos (ISO)

dimethyl sulfoxide (ISO)

doxorubicin (ISO)

ethanol (ISO)

eugenol (EXP)

finasteride (EXP)

flutamide (EXP)

furfural (ISO)

hydrogen peroxide (ISO)

inulin (ISO)

ivermectin (ISO)

methapyrilene (ISO)

methimazole (EXP)

methyl methanesulfonate (ISO)

nitrates (ISO)

okadaic acid (ISO)

paracetamol (ISO)

perfluorohexanesulfonic acid (ISO)

perfluorooctane-1-sulfonic acid (ISO)

rotenone (EXP,ISO)

silicon dioxide (ISO)

sodium arsenite (ISO)

sodium chloride (ISO)

sulfadimethoxine (EXP)

tamoxifen (ISO)

tetrahydropalmatine (ISO)

thapsigargin (EXP,ISO)

thiram (ISO)

titanium dioxide (ISO)

trichostatin A (ISO)

triptonide (ISO)

trovafloxacin (EXP)

tunicamycin (ISO)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

calcium export from the mitochondrion (IEA,ISO,ISS)

calcium ion transport (IEA,ISO)

cristae formation (IEA,ISO)

inner mitochondrial membrane organization (IEA,ISO,ISS)

mitochondrial calcium ion homeostasis (IEA,ISO,ISS)

mitochondrial calcium ion transmembrane transport (IBA,IEA,ISO,ISS)

mitochondrial potassium ion transmembrane transport (IEA,ISO,ISS)

mitochondrion organization (IBA)

monoatomic ion transport (IEA)

negative regulation of mitochondrial calcium ion concentration (IEA,ISO,ISS)

potassium ion transport (IEA)

protein hexamerization (IEA,ISO,ISS)

protein homooligomerization (IEA,ISO,ISS)

proton transmembrane transport (IEA)

regulation of cellular hyperosmotic salinity response (IEA,ISO,ISS)

Cellular Component

mitochondrial inner membrane (IEA,ISO,ISS)

mitochondrion (IBA,IEA,ISO)

Molecular Function

antiporter activity (IEA)

calcium:proton antiporter activity (IBA,IEA,ISO,ISS)

metal ion binding (IEA)

protein binding (ISO)

ribosome binding (IEA)

References

References - curated

#	Reference Title	Reference Citation
1.	LETM1, a novel gene encoding a putative EF-hand Ca(2+)-binding protein, flanks the Wolf-Hirschhorn syndrome (WHS) critical region and is deleted in most WHS patients.	Endele S, etal., Genomics 1999 Sep 1;60(2):218-25.
2.	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.
3.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
4.	Integrated analysis of protein composition, tissue diversity, and gene regulation in mouse mitochondria.	Mootha VK, etal., Cell 2003 Nov 26;115(5):629-40.
5.	GOA pipeline	RGD automated data pipeline
6.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
7.	Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences.	Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.

Additional References at PubMed

PMID:12865426	PMID:15489334	PMID:18614015	PMID:18628306	PMID:19797662	PMID:23645710	PMID:25077561	PMID:26316108	PMID:26975899	PMID:27669901	PMID:29476059

Genomics

Comparative Map Data

Letm1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	14	81,167,268 - 81,206,776 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	14	81,162,309 - 81,209,459 (+)	Ensembl				GRCr8
mRatBN7.2	14	76,942,647 - 76,982,220 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	14	76,942,729 - 76,984,904 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	14	81,395,109 - 81,434,584 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	14	82,635,714 - 82,675,193 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	14	79,081,018 - 79,120,498 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	14	82,227,790 - 82,267,298 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	14	82,227,708 - 82,267,350 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	14	82,917,692 - 82,959,167 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	14	82,637,839 - 82,677,419 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	14	75,866,265 - 75,905,572 (+)	NCBI		Celera
RGSC_v3.1	14	82,640,229 - 82,679,808 (+)	NCBI
Cytogenetic Map	14	q21	NCBI

LETM1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	4	1,811,479 - 1,856,156 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	4	1,811,479 - 1,856,232 (-)	Ensembl			hg38	GRCh38
GRCh37	4	1,813,206 - 1,857,883 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	4	1,784,558 - 1,827,772 (-)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	4	1,781,990 - 1,825,205	NCBI
Celera	4	1,725,718 - 1,769,826 (-)	NCBI		Celera
Cytogenetic Map	4	p16.3	NCBI
HuRef	4	1,756,076 - 1,799,634 (-)	NCBI		HuRef
CHM1_1	4	1,811,156 - 1,856,557 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	4	1,809,954 - 1,854,630 (-)	NCBI		T2T-CHM13v2.0

Letm1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	5	33,897,017 - 33,940,061 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	5	33,897,017 - 33,940,161 (-)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	5	33,739,673 - 33,782,717 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	5	33,739,673 - 33,782,817 (-)	Ensembl			mm10	GRCm38
MGSCv37	5	34,084,001 - 34,125,353 (-)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	5	34,058,209 - 34,099,561 (-)	NCBI		MGSCv36	mm8
Celera	5	31,217,468 - 31,258,804 (-)	NCBI		Celera
Cytogenetic Map	5	B2	NCBI
cM Map	5	17.83	NCBI

Letm1
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955514	1,042,307 - 1,069,114 (-)	Ensembl
ChiLan1.0	NW_004955514	1,040,103 - 1,069,297 (-)	NCBI	ChiLan1.0	ChiLan1.0

LETM1
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	3	2,141,769 - 2,187,380 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	4	2,078,781 - 2,124,399 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	4	1,953,033 - 1,994,958 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	4	1,862,788 - 1,897,029 (-)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	4	1,862,788 - 1,900,901 (-)	Ensembl			panPan2	panpan1.1

LETM1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	3	62,268,027 - 62,304,767 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	3	62,267,708 - 62,302,136 (+)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	3	64,785,792 - 64,822,554 (+)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	3	62,743,457 - 62,780,252 (+)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	3	62,743,480 - 62,778,969 (+)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	3	62,237,035 - 62,273,781 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	3	62,440,602 - 62,477,319 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	3	62,799,711 - 62,836,516 (+)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Letm1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024405285	67,848,412 - 67,887,970 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936477	21,550,013 - 21,587,007 (+)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936477	21,550,104 - 21,589,662 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

LETM1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	8	898,181 - 926,593 (-)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	8	898,178 - 926,500 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	8	349,636 - 376,777 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

LETM1
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	27	46,912,882 - 46,954,295 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	27	46,912,819 - 46,956,164 (+)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM
Vero_WHO_p1.0	NW_023666051	3,289,082 - 3,330,719 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Letm1
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624755	25,604,454 - 25,631,716 (+)	Ensembl		HetGla_female_1.0 Ensembl	hetGla2	HetGla_female_1.0 Ensembl
HetGla 1.0	NW_004624755	25,604,636 - 25,631,974 (+)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Letm1
(Rattus rattus - black rat)

Black Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Black Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rrattus_CSIRO_v1	11	71,057,532 - 71,100,413 (+)	NCBI		Rrattus_CSIRO_v1

Variants

Variants in Letm1
295 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	174
Count of miRNA genes:	146
Interacting mature miRNAs:	159
Transcripts:	ENSRNOT00000022540
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 (GRCr8)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
2313089	Bss81	Bone structure and strength QTL 81	3.4	0.0001	body length (VT:0001256)	body length, nose to rump (CMO:0000079)	14	38023710	83023710	Rat
1582236	Gluco22	Glucose level QTL 22	3.3	0.0164	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	14	77640071	96755654	Rat
9590294	Uminl4	Urine mineral level QTL 4	5.66	0.001	urine mineral amount (VT:0015086)	urine electrolyte level (CMO:0000593)	14	59848686	104848686	Rat
2300197	Scl59	Serum cholesterol level QTL 59			blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	14	77914838	104348525	Rat
70214	Niddm28	Non-insulin dependent diabetes mellitus QTL 28	4.06		blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	14	39009444	84009444	Rat
70153	Bp59	Blood pressure QTL 59	3.2		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	14	72970210	87582095	Rat
70187	Pancm5	Pancreatic morphology QTL 5	16.7		pancreas mass (VT:0010144)	pancreas weight to body weight ratio (CMO:0000630)	14	30674469	85041098	Rat
631523	Pia13	Pristane induced arthritis QTL 13	3.3		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	14	33424686	102238540	Rat
1582259	Gluco23	Glucose level QTL 23	3.1	0.0008	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	14	74255551	109089856	Rat
1582197	Gluco27	Glucose level QTL 27	3.4	0.0006	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	14	77640071	96755654	Rat
2313100	Bss82	Bone structure and strength QTL 82	3	0.0001	tibia size trait (VT:0100001)	tibia midshaft cross-sectional area (CMO:0001717)	14	38023710	83023710	Rat
634328	Hc5	Hypercalciuria QTL 5	2.3		urine calcium amount (VT:0002985)	urine calcium excretion rate (CMO:0000763)	14	62398852	107398852	Rat
1582250	Gluco26	Glucose level QTL 26	3.3	0.0009	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	14	77640071	100078267	Rat
2317879	Alcrsp27	Alcohol response QTL 27	3.3	0.63	response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	14	60854936	105854936	Rat
1641900	Alcrsp11	Alcohol response QTL 11			alcohol metabolism trait (VT:0015089)	blood ethanol level (CMO:0000535)	14	74255551	109089856	Rat
631839	Niddm37	Non-insulin dependent diabetes mellitus QTL 37	3.37		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	14	11334716	100078267	Rat
1582255	Gluco29	Glucose level QTL 29	3.1	0.0025	blood glucose amount (VT:0000188)	absolute change in blood glucose level area under curve (CMO:0002034)	14	77640071	96755654	Rat
9589034	Epfw11	Epididymal fat weight QTL 11	6	0.001	epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	14	59848686	104848686	Rat
1582209	Gluco20	Glucose level QTL 20	3.8	0.0005	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	14	77640071	96755654	Rat
1300136	Rf22	Renal function QTL 22	3.9		renal blood flow trait (VT:2000006)	absolute change in renal vascular resistance (CMO:0001900)	14	42616258	99224555	Rat
2313048	Bss84	Bone structure and strength QTL 84	3.1	0.0001	tibia strength trait (VT:1000284)	tibia total energy absorbed before break (CMO:0001736)	14	38023710	83023710	Rat
1549834	Scl45	Serum cholesterol level QTL 45	5.8		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	14	65920283	99224555	Rat
738037	Hcas6	Hepatocarcinoma susceptibility QTL 6	2.93		liver integrity trait (VT:0010547)	liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)	14	39411170	87582095	Rat
2313084	Bss83	Bone structure and strength QTL 83	2.9	0.0001	tibia size trait (VT:0100001)	tibia midshaft endosteal cross-sectional area (CMO:0001716)	14	38023710	83023710	Rat

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Download All Expressed Objects for this Gene

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
16	12	67	162	91	90	59	92	59	6	356	192	11	141	81	92	31	17	17

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001005884	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC133613	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC083642	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473963	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000014	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000022540 ⟹ ENSRNOP00000022540

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	14	81,167,230 - 81,209,459 (+)	Ensembl
mRatBN7.2 Ensembl	14	76,942,729 - 76,984,904 (+)	Ensembl
Rnor_6.0 Ensembl	14	82,227,708 - 82,267,350 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000099794 ⟹ ENSRNOP00000078896

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	14	81,177,814 - 81,209,459 (+)	Ensembl
mRatBN7.2 Ensembl	14	76,953,149 - 76,984,904 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000147310 ⟹ ENSRNOP00000107467

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	14	81,162,309 - 81,209,459 (+)	Ensembl

RefSeq Acc Id:

NM_001005884 ⟹ NP_001005884

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	14	81,167,268 - 81,206,776 (+)	NCBI
mRatBN7.2	14	76,942,709 - 76,982,220 (+)	NCBI
Rnor_6.0	14	82,227,790 - 82,267,298 (+)	NCBI
Rnor_5.0	14	82,917,692 - 82,959,167 (+)	NCBI
RGSC_v3.4	14	82,637,839 - 82,677,419 (+)	RGD
Celera	14	75,866,265 - 75,905,572 (+)	RGD

Sequence:

show sequence

CCCGGCCTGTCCCGCCCTGCGCCTCCGAACGTCTGTGCCGGGACATGGCCGCTGCTGATGCCGG
GTCCTTGAGCTGAGCGCCTACTGCCGGAGCCAACCTCTGCGGTCAACCGTCCGCACGATCTGGG
CCCAGGAGCCGGGAGGGCGAAAATCAGCCGAGGAAGCTGAGGCTGCCATAGGACGCCGCCGCGG
CGGGCGCATGGCGTCCATCTTGCTCAGGAGCTGCCGCGGCCGGGGGCCTGCCCGCCTCGCGTCG
CCCCGGGCCGCTTCCCCGCGGGGTAGTCTGAGGGATCGAGCTTGTCTCAGTTGTACCAGGACCG
TGGGGTTGACGAGCCATGAGAGTGTTCTGTCCCGCTGTTGTACTCCAGCCAACCCTGTGTACCT
CTACTTCAAAAGTGAGCCCCTCAGCTGTTGGACTCAGAGGCCTGAGTGCCAGGGCACCGTGGCA
AGGGCAGCATGGACACCTGCCTCTGCGAGGTTGGTTGTTACGGGACCTCAGTACCTTCCTGTGC
GTGGCTGGCACTCATCATCCCCACTAGGAGAGGACTCTATGATAGAGAAATCCCTTAAGTCTTT
AAAGGACAAGAATAAGAAGCTGGAAGAAGGTGGCCCCGTGTACAGCCCGCCAGCTCAGGTGGTA
GTGAAGAAGTCCCTGGGGCAGAAGATACTGGATGAGCTGAAGCACTACTACCATGGCTTCCGCC
TGCTGTGGATCGACACCAAGATAGCCGCCCGTATGCTGTGGCGCATCCTGAATGGCCATACGCT
GACCCGCCGGGAGCGCAGGCAGTTTCTCCGGATTTGTGCAGACCTCTTCCGTCTAGTACCCTTC
CTGGTGTTCGTGGTGGTACCCTTCATGGAATTCCTGCTGCCTGTAGTTGTGAAGCTCTTCCCCA
ATATGCTGCCCTCCACATTTGAGACCCAGTCTATCAAGGAGGAAAGGCTGAAGAAGGAGCTTAG
GGTGAAGCTGGAGCTAGCCAAGTTTCTCCAAGACACCATAGAGGAAATGGCCCTGAAGAACAAG
GCAGCCAAAGGGAATGCCACCAAGGATTTCTCTGCCTTTTTCCAGAAGATCCGGGAGACAGGGG
AGAGACCCAGCAATGAAGAAATCATGCGTTTTTCCAAATTATTTGAGGATGAACTGACCCTGGA
TAACCTAACGAGGCCTCAACTGGTAGCACTGTGCAAGCTGCTGGAGCTTCAGTCCATTGGTACC
AACAACTTCTTGCGTTTCCAGCTCACCATGCGGCTGAGGTCTATAAAGGCTGATGATAAGCTGA
TTTCTGAGGAAGGGGTAGACAGTCTGACTGTGAAGGAATTGCAGGCAGCGTGTCGAGCACGGGG
CATGCGAGCACTTGGTGTCACAGAAGACCGTCTGAAGGGCCAGCTGAAACAGTGGCTGGACTTG
CACCTGTATCACGAGATCCCTACATCATTGCTCATACTGTCCCGGGCCATGTACCTCCCAGACA
CCCTCTCACCTGCCGACCAGCTGAAGTCCACCTTGCAGACCCTTCCAGAAATTGTGGCAAAGGA
GGCTCAGGTAAAAGCGGCTGAGGTGGAGGGCGAACAGGTAGACAACAAGGCGAAGCTGGAGGCC
ACACTGCAGGAAGAGGCCGCCATCCAGCAGGAGCACCTGGAAGAACTAAAGAGAGCCGCTGAGA
CTGCGAAGGACATCCAGCCAGAAGTAGCAGAAGCCACTGTCCCTGGGAGGCCAGGCGCCGAGCT
TCAGCCCAAGATGGTTGATGTGATCCCGCCCTCAGAGATACTAAAGGATACAGCACCTGTTCTG
GAAGGTTTGAAGGGAGAAGAGATAACCAAGGAGGAAATTGACATCCTCAGTGACGCCTGCTCCA
AGCTAAAGGAGCAGAAGAAGTCCCTGACCAAGGAGAAGGAGGAGCTGGAGCTGCTGAAAGAGGA
TGTCCAGGACTACAGTGAGGACTTGCAGGAGATCAAGAAGGAACTTTCCAAGACGGGTGATGAG
AAATACATAGAAGAGTCTACAGCCAGCAAGAGGCTGTCCAAGCGGGTGCAGCAGATGATCGGGC
AGATCGATGGCCTCATCACACAGCTGGAGACCACGCAACAGAACGGCAAGCTGGACCCCGCTGC
TGCGAGCTCTCCCACAGGGGAGAGTGTCATCAGCGTCGACGAGCTCATCAGCGCCATGAAGCAA
ATCAAGCACATTCCAGAACACAAGCTGATCAGTTTGACCTCAGCCCTGGATGAAAATAAGGATG
GCAATATCAACATCGATGATCTTGTTAAGGTAATCGACTTGGTGAACAAAGAAGATGTCCAGAT
CTCTACCACCCAGGTAGCCGAGATTGTGGCCACACTAGAGAAGGAAGAAAAGGTGGAAGAGAAG
GAAAAGGCCAAGGAAAAGGCTGAGAAGGAGGCGGCAGAAGTGAAGAACTAGAGCTGCCGGGCTC
TTGGCCCCACGGGGCCTGCCTTCATGTCATACCCACCATGGTGACACGGCACACGAGTGATTGC
TCTGAGGTGATTTTTAGTGGCAAATCTAATATTTTGTCTGTGGAATAAATCAGAAACTTCCACA
ATGAAAAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_001005884	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH83642	(Get FASTA)	NCBI Sequence Viewer
	EDM00114	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000022540
	ENSRNOP00000022540.3
GenBank Protein	Q5XIN6	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:	NP_001005884 ⟸ NM_001005884
- Peptide Label:	precursor
- UniProtKB:	Q5XIN6 (UniProtKB/Swiss-Prot), A6IK50 (UniProtKB/TrEMBL), A0A8I5ZLQ4 (UniProtKB/TrEMBL)
- Sequence:	show sequence MASILLRSCRGRGPARLASPRAASPRGSLRDRACLSCTRTVGLTSHESVLSRCCTPANPVYLYF KSEPLSCWTQRPECQGTVARAAWTPASARLVVTGPQYLPVRGWHSSSPLGEDSMIEKSLKSLKD KNKKLEEGGPVYSPPAQVVVKKSLGQKILDELKHYYHGFRLLWIDTKIAARMLWRILNGHTLTR RERRQFLRICADLFRLVPFLVFVVVPFMEFLLPVVVKLFPNMLPSTFETQSIKEERLKKELRVK LELAKFLQDTIEEMALKNKAAKGNATKDFSAFFQKIRETGERPSNEEIMRFSKLFEDELTLDNL TRPQLVALCKLLELQSIGTNNFLRFQLTMRLRSIKADDKLISEEGVDSLTVKELQAACRARGMR ALGVTEDRLKGQLKQWLDLHLYHEIPTSLLILSRAMYLPDTLSPADQLKSTLQTLPEIVAKEAQ VKAAEVEGEQVDNKAKLEATLQEEAAIQQEHLEELKRAAETAKDIQPEVAEATVPGRPGAELQP KMVDVIPPSEILKDTAPVLEGLKGEEITKEEIDILSDACSKLKEQKKSLTKEKEELELLKEDVQ DYSEDLQEIKKELSKTGDEKYIEESTASKRLSKRVQQMIGQIDGLITQLETTQQNGKLDPAAAS SPTGESVISVDELISAMKQIKHIPEHKLISLTSALDENKDGNINIDDLVKVIDLVNKEDVQIST TQVAEIVATLEKEEKVEEKEKAKEKAEKEAAEVKN hide sequence

Ensembl Acc Id:

ENSRNOP00000022540 ⟸ ENSRNOT00000022540

Ensembl Acc Id:

ENSRNOP00000078896 ⟸ ENSRNOT00000099794

Ensembl Acc Id:

ENSRNOP00000107467 ⟸ ENSRNOT00000147310

Protein Domains

EF-hand Letm1 RBD

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q5XIN6-F1-model_v2	AlphaFold	Q5XIN6	1-739	view protein structure

Transcriptome

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

Promoters

RGD ID:

13699408

Promoter ID:

EPDNEW_R9932

Type:

multiple initiation site

Name:

Letm1_1

Description:

leucine zipper and EF-hand containing transmembrane protein 1

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	14	82,227,824 - 82,227,884	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1359678	AgrOrtholog
BioCyc Gene	G2FUF-15269	BioCyc
Ensembl Genes	ENSRNOG00000016427	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000022540	ENTREZGENE
	ENSRNOT00000022540.7	UniProtKB/Swiss-Prot
Gene3D-CATH	EF-hand	UniProtKB/Swiss-Prot
IMAGE_CLONE	IMAGE:7134917	IMAGE-MGC_LOAD
InterPro	EF-hand-dom_pair	UniProtKB/Swiss-Prot
	EF_Hand_1_Ca_BS	UniProtKB/Swiss-Prot
	LETM1/MDM38-like	UniProtKB/Swiss-Prot
	LETM1_RBD	UniProtKB/Swiss-Prot
KEGG Report	rno:305457	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:94466	IMAGE-MGC_LOAD
NCBI Gene	305457	ENTREZGENE
PANTHER	MITOCHONDRIAL PROTON/CALCIUM EXCHANGER PROTEIN	UniProtKB/Swiss-Prot
	PTHR14009	UniProtKB/Swiss-Prot
Pfam	LETM1	UniProtKB/Swiss-Prot
PhenoGen	Letm1	PhenoGen
PROSITE	EF_HAND_1	UniProtKB/Swiss-Prot
	LETM1_RBD	UniProtKB/Swiss-Prot
RatGTEx	ENSRNOG00000016427	RatGTEx
Superfamily-SCOP	SSF47473	UniProtKB/Swiss-Prot
UniProt	A0A8I5ZLQ4	ENTREZGENE, UniProtKB/TrEMBL
	A0ABK0LTM0_RAT	UniProtKB/TrEMBL
	A6IK50	ENTREZGENE, UniProtKB/TrEMBL
	LETM1_RAT	UniProtKB/Swiss-Prot, ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-03-08	Letm1	leucine zipper and EF-hand containing transmembrane protein 1	Letm1	leucine zipper-EF-hand containing transmembrane protein 1	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2006-03-30	Letm1	leucine zipper-EF-hand containing transmembrane protein 1			Symbol and Name status set to approved	1299863	APPROVED
2005-07-29	Letm1	leucine zipper-EF-hand containing transmembrane protein 1			Symbol and Name status set to provisional	70820	PROVISIONAL

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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Imported Disease Annotations - CTD

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