Lsmem1 (leucine-rich single-pass membrane protein 1) - Rat Genome Database

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Gene: Lsmem1 (leucine-rich single-pass membrane protein 1) Mus musculus
Analyze
Symbol: Lsmem1
Name: leucine-rich single-pass membrane protein 1
RGD ID: 1614791
MGI Page MGI
Description: Predicted to be located in membrane. Orthologous to human LSMEM1 (leucine rich single-pass membrane protein 1).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: coiled-coil domain-containing transmembrane protein C7orf53 homolog; Gm889; hypothetical protein LOC380755
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391240,226,385 - 40,249,314 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1240,225,492 - 40,249,489 (-)EnsemblGRCm39 Ensembl
GRCm381240,176,386 - 40,199,315 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1240,175,493 - 40,199,490 (-)EnsemblGRCm38mm10GRCm38
MGSCv371240,902,973 - 40,925,902 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361240,686,809 - 40,709,738 (-)NCBIMGSCv36mm8
Celera1241,604,963 - 41,627,446 (-)NCBICelera
Cytogenetic Map12B1NCBI
cM Map1218.06NCBI
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
membrane  (IEA)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:16141072   PMID:16141073   PMID:21677750  


Genomics

Comparative Map Data
Lsmem1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391240,226,385 - 40,249,314 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1240,225,492 - 40,249,489 (-)EnsemblGRCm39 Ensembl
GRCm381240,176,386 - 40,199,315 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1240,175,493 - 40,199,490 (-)EnsemblGRCm38mm10GRCm38
MGSCv371240,902,973 - 40,925,902 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361240,686,809 - 40,709,738 (-)NCBIMGSCv36mm8
Celera1241,604,963 - 41,627,446 (-)NCBICelera
Cytogenetic Map12B1NCBI
cM Map1218.06NCBI
LSMEM1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh387112,480,304 - 112,491,062 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl7112,480,853 - 112,491,062 (+)EnsemblGRCh38hg38GRCh38
GRCh377112,120,908 - 112,131,117 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 367111,908,282 - 111,918,178 (+)NCBINCBI36Build 36hg18NCBI36
Celera7106,932,874 - 106,942,905 (+)NCBICelera
Cytogenetic Map7q31.1NCBI
HuRef7106,488,571 - 106,498,604 (+)NCBIHuRef
CHM1_17112,055,026 - 112,065,050 (+)NCBICHM1_1
T2T-CHM13v2.07113,797,449 - 113,809,353 (+)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v27111,489,413 - 111,499,441 (+)NCBI
Lsmem1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8662,978,880 - 62,988,750 (-)NCBIGRCr8
mRatBN7.2657,251,720 - 57,261,590 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl657,252,056 - 57,261,653 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx657,530,609 - 57,540,461 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0657,845,554 - 57,855,408 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0657,321,079 - 57,330,933 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0660,114,077 - 60,124,297 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl660,114,103 - 60,124,274 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0669,701,016 - 69,712,471 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4659,413,670 - 59,419,484 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera656,292,914 - 56,303,197 (-)NCBICelera
Cytogenetic Map6q21NCBI
Lsmem1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541016,224,294 - 16,235,975 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541016,224,294 - 16,235,975 (+)NCBIChiLan1.0ChiLan1.0
LSMEM1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v26149,304,830 - 149,323,845 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan171,313,521 - 1,334,470 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v07104,441,634 - 104,459,220 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.17117,144,969 - 117,161,709 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl7117,144,969 - 117,161,709 (+)Ensemblpanpan1.1panPan2
LSMEM1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11452,080,931 - 52,092,851 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1452,053,434 - 52,092,365 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1451,534,973 - 51,546,585 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01452,127,043 - 52,138,793 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1452,131,690 - 52,138,799 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11452,145,240 - 52,156,834 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01451,825,179 - 51,836,742 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01452,201,269 - 52,212,916 (+)NCBIUU_Cfam_GSD_1.0
Lsmem1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440511871,817,075 - 71,827,468 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936795561,341 - 567,026 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936795561,322 - 567,154 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LSMEM1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1833,184,171 - 33,190,831 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11833,184,167 - 33,190,910 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21835,901,616 - 35,907,161 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LSMEM1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12181,296,507 - 81,307,362 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604222,508,116 - 22,516,891 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lsmem1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473917,427,457 - 17,440,088 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473917,427,239 - 17,441,391 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Lsmem1
825 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:179
Count of miRNA genes:163
Interacting mature miRNAs:170
Transcripts:ENSMUST00000095760
Prediction methods:Miranda, Rnahybrid
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4142234Tmc1m3_mTmc1 modifier 3 (mouse)Not determined12541844077031203Mouse
1301163Eae16_msusceptibility to experimental allergic encephalomyelitis 16 (mouse)Not determined12772315841723301Mouse
1301037Cd4ts5_mCD4 T cell subset 5 (mouse)Not determined12835244442352581Mouse
1301723Fcsa7_mfemoral cross-sectional area 7 (mouse)Not determined12949100443491112Mouse
27226753Femd7_mfemur midshaft diameter 7, 10 week (mouse)12955000084146774Mouse
14746972Manh72_mmandible shape 72 (mouse)121061528144615281Mouse
10401249Bglu15_mblood glucose level 15 (mouse)Not determined121062064244620809Mouse
13524843Ppiq8_mprepulse inhibition QTL 8 (mouse)121104319450945796Mouse
13207568Tcq14_mtotal cholesterol QTL 14 (mouse)121166000197176774Mouse
4141516slwr_mslowlearner (mouse)Not determined1239247546392614Mouse
13524839Ppiq10_mprepulse inhibition QTL 10 (mouse)121304319554945798Mouse
10043977Obq34_mobesity QTL 34 (mouse)Not determined121514733149147331Mouse
1558978Cplaq10_mcircadian period of locomotor activity 10 (mouse)Not determined121534102679040364Mouse
26884413Bzwq9_mbi-zygomatic width QTL 9, 10 week (mouse)121615000147746783Mouse
1301574Lmblgq5_mlimb length QTL 5 (mouse)Not determined121759644780956883Mouse
15039339Nmrs29_mNAFLD-associated magnetic resonance shift 29 (mouse)121782585251825852Mouse
10043848Hdlq90_mHDL QTL 90 (mouse)Not determined121783993951840081Mouse
1300870Ath18_matherosclerosis 18 (mouse)Not determined121825996652260067Mouse
12904956Edlmmq10_mextensor digitorum longus muscle mass QTL 10 (mouse)121973983353739833Mouse
1302172Skts5_mskin tumor susceptibility 5 (mouse)Not determined122214886656149016Mouse
1301989Hdlq18_mHDL QTL 18 (mouse)Not determined122916068563160884Mouse
1300636Gct2_mgranulosa cell tumorigenesis 2 (mouse)Not determined122916068563160884Mouse
4141843Moen3_mmodifier of engrailed QTL 3 (mouse)Not determined122980158463801733Mouse
14747008Mancz10_mmandible centroid size 10 (mouse)122986352263863522Mouse
10402492Dipa8_mdrug induced psychomotor activation 8 (mouse)Not determined123493387268934019Mouse
1300818Bbaa10_mB.burgdorferi-associated arthritis 10 (mouse)Not determined123509100465511019Mouse
12879483Asp1_maudiogenic seizure prone 1 (mouse)123528549646801733Mouse
4142002Tbqt3_mtibia bone quality traits 3 (mouse)Not determined1235285496109936243Mouse


Expression


Sequence


RefSeq Acc Id: ENSMUST00000095760   ⟹   ENSMUSP00000093434
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1240,226,385 - 40,249,314 (-)Ensembl
GRCm38.p6 Ensembl1240,176,386 - 40,199,315 (-)Ensembl
RefSeq Acc Id: ENSMUST00000220951   ⟹   ENSMUSP00000152529
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1240,225,492 - 40,249,489 (-)Ensembl
GRCm38.p6 Ensembl1240,175,493 - 40,199,490 (-)Ensembl
RefSeq Acc Id: NM_001033437   ⟹   NP_001028609
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391240,226,385 - 40,249,314 (-)NCBI
GRCm381240,176,386 - 40,199,315 (-)ENTREZGENE
MGSCv371240,902,973 - 40,925,902 (-)RGD
Celera1241,604,963 - 41,627,446 (-)RGD
cM Map12 ENTREZGENE
Sequence:
RefSeq Acc Id: NP_001028609   ⟸   NM_001033437
- UniProtKB: Q3UZ75 (UniProtKB/Swiss-Prot),   Q3UQS2 (UniProtKB/Swiss-Prot),   B2RVW5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000093434   ⟸   ENSMUST00000095760
RefSeq Acc Id: ENSMUSP00000152529   ⟸   ENSMUST00000220951

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q3UQS2-F1-model_v2 AlphaFold Q3UQS2 1-128 view protein structure

Promoters
RGD ID:8678190
Promoter ID:EPDNEW_M17126
Type:initiation region
Name:Lsmem1_1
Description:Mus musculus leucine-rich single-pass membrane protein 1 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381240,199,307 - 40,199,367EPDNEW
RGD ID:6823022
Promoter ID:MM_KWN:11543
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   Kidney,   Lung,   MEF_B4,   MEF_B6
Transcripts:ENSMUST00000101468,   NM_001033437
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361240,925,511 - 40,926,822 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2685735 AgrOrtholog
Ensembl Genes ENSMUSG00000071342 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000095760 ENTREZGENE
  ENSMUST00000095760.3 UniProtKB/Swiss-Prot
  ENSMUST00000220951.2 UniProtKB/Swiss-Prot
InterPro DUF4577 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:380755 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:2685735 ENTREZGENE
NCBI Gene 380755 ENTREZGENE
PANTHER LEUCINE-RICH SINGLE-PASS MEMBRANE PROTEIN 1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR36475 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam DUF4577 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Lsmem1 PhenoGen
UniProt B2RVW5 ENTREZGENE, UniProtKB/TrEMBL
  LSME1_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
  Q3UZ75 ENTREZGENE
UniProt Secondary Q3UZ75 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-03-26 Lsmem1  leucine-rich single-pass membrane protein 1  Gm889  predicted gene 889  Symbol and/or name change 5135510 APPROVED