Lsmem2 (leucine-rich single-pass membrane protein 2) - Rat Genome Database

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Gene: Lsmem2 (leucine-rich single-pass membrane protein 2) Rattus norvegicus
Analyze
Symbol: Lsmem2
Name: leucine-rich single-pass membrane protein 2
RGD ID: 1589957
Description: Predicted to be located in membrane. Orthologous to human LSMEM2 (leucine rich single-pass membrane protein 2); INTERACTS WITH acrylamide; alpha-Zearalanol; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: hypothetical protein LOC689621; LOC689621
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88117,144,498 - 117,149,300 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl8117,144,464 - 117,149,185 (-)EnsemblGRCr8
mRatBN7.28108,265,855 - 108,270,656 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8108,266,345 - 108,279,115 (-)EnsemblmRatBN7.2
Rnor_6.08116,348,406 - 116,353,092 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8116,348,751 - 116,349,896 (-)Ensemblrn6Rnor6.0
Rnor_5.08115,704,246 - 115,709,043 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.48112,840,587 - 112,844,108 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera8107,572,857 - 107,577,547 (-)NCBICelera
Cytogenetic Map8q32NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References

Genomics

Comparative Map Data
Lsmem2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88117,144,498 - 117,149,300 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl8117,144,464 - 117,149,185 (-)EnsemblGRCr8
mRatBN7.28108,265,855 - 108,270,656 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8108,266,345 - 108,279,115 (-)EnsemblmRatBN7.2
Rnor_6.08116,348,406 - 116,353,092 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8116,348,751 - 116,349,896 (-)Ensemblrn6Rnor6.0
Rnor_5.08115,704,246 - 115,709,043 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.48112,840,587 - 112,844,108 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera8107,572,857 - 107,577,547 (-)NCBICelera
Cytogenetic Map8q32NCBI
LSMEM2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38350,277,907 - 50,288,114 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl350,279,030 - 50,288,116 (+)Ensemblhg38GRCh38
GRCh37350,316,518 - 50,325,545 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36350,291,522 - 50,300,549 (+)NCBIBuild 36Build 36hg18NCBI36
Celera350,289,343 - 50,298,377 (+)NCBICelera
Cytogenetic Map3p21.31NCBI
HuRef350,372,254 - 50,381,288 (+)NCBIHuRef
CHM1_1350,268,801 - 50,277,851 (+)NCBICHM1_1
T2T-CHM13v2.0350,307,257 - 50,317,471 (+)NCBIT2T-CHM13v2.0
Lsmem2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399107,469,825 - 107,475,189 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl9107,469,829 - 107,474,274 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm389107,592,626 - 107,597,990 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9107,592,630 - 107,597,075 (-)Ensemblmm10GRCm38
MGSCv379107,495,398 - 107,499,406 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv369107,451,168 - 107,455,176 (-)NCBIMGSCv36mm8
Celera9107,201,848 - 107,205,857 (-)NCBICelera
Cytogenetic Map9F1NCBI
cM Map958.28NCBI
Lsmem2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555322,096,770 - 2,100,876 (+)Ensembl
ChiLan1.0NW_0049555322,096,231 - 2,101,541 (+)NCBIChiLan1.0ChiLan1.0
LSMEM2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2250,260,361 - 50,271,169 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1350,265,136 - 50,275,944 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0350,206,431 - 50,216,716 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1351,440,642 - 51,451,467 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl351,441,739 - 51,451,467 (+)EnsemblpanPan2panpan1.1
LSMEM2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12039,053,152 - 39,058,467 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2039,053,950 - 39,054,717 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2038,974,188 - 38,979,081 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02039,409,187 - 39,414,087 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2039,409,985 - 39,410,752 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12038,777,009 - 38,781,902 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02039,180,520 - 39,185,405 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02039,460,589 - 39,465,481 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Lsmem2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560265,058,277 - 65,064,970 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049365291,819,848 - 1,825,472 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LSMEM2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1332,753,199 - 32,757,034 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11332,752,515 - 32,757,042 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21335,928,407 - 35,935,562 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LSMEM2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12211,666,171 - 11,675,465 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666041155,311,530 - 155,319,781 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lsmem2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247304,144,588 - 4,148,953 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Lsmem2
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1898,909,991 - 98,914,046 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Lsmem2
52 total Variants

QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2303171Bp331Blood pressure QTL 3315.570.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)8105462581132782436Rat
1549909Stresp11Stress response QTL 116.830.0019stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)882352698127352698Rat
631210Bw3Body weight QTL35.9mesenteric fat pad mass (VT:0010427)mesenteric fat pad weight to body weight ratio (CMO:0000654)861019838121662124Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)849849908118871671Rat
9590292Uminl3Urine mineral level QTL 33.620.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)880768445125768445Rat
8694446Bw170Body weight QTL 17012.070.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)880768445125768445Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)870041301121080908Rat
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)868690349119799881Rat
10450865Bw175Body weight QTL 1754.1total fat pad mass (VT:0015008)adipose tissue molecular composition measurement (CMO:0000484)884192326129192326Rat
724539Cm19Cardiac mass QTL 192.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)8103375781129871912Rat
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)8102413464132782436Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)855428333127966348Rat
634332Pia18Pristane induced arthritis QTL 184joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)884192326132782436Rat
2300181Bmd55Bone mineral density QTL 555.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)885348065130348065Rat
631217Activ1Activity QTL 115.9voluntary movement trait (VT:0003491)number of photobeam interruptions in an experimental apparatus (CMO:0001517)8111249511117802327Rat
1300171Bp184Blood pressure QTL 1843.66arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)879394435132782436Rat
2313400Anxrr25Anxiety related response QTL 25aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)898145073122898010Rat
8694200Abfw4Abdominal fat weight QTL 49.070.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)880768445125768445Rat
8694392Bw161Body weight QTL 1618.060.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)880768445125768445Rat
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)891340911131690273Rat

Markers in Region
RH131906  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28108,271,751 - 108,271,957 (+)MAPPERmRatBN7.2
Rnor_6.08116,353,880 - 116,354,085NCBIRnor6.0
Rnor_5.08115,710,139 - 115,710,344UniSTSRnor5.0
RGSC_v3.48112,845,518 - 112,845,723UniSTSRGSC3.4
Celera8107,578,335 - 107,578,540UniSTS
RH 3.4 Map81118.6UniSTS
Cytogenetic Map8q32UniSTS
RH142073  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28108,271,226 - 108,271,420 (+)MAPPERmRatBN7.2
Rnor_6.08116,353,355 - 116,353,548NCBIRnor6.0
Rnor_5.08115,709,614 - 115,709,807UniSTSRnor5.0
RGSC_v3.48112,844,993 - 112,845,186UniSTSRGSC3.4
Celera8107,577,810 - 107,578,003UniSTS
RH 3.4 Map81118.6UniSTS
Cytogenetic Map8q32UniSTS


Expression

RNA-SEQ Expression

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 67 145 54 53 22 60 22 6 287 160 11 124 81 90 31 13 13

Sequence


Ensembl Acc Id: ENSRNOT00000087306   ⟹   ENSRNOP00000075362
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl8117,144,464 - 117,149,060 (-)Ensembl
mRatBN7.2 Ensembl8108,266,664 - 108,267,783 (-)Ensembl
Rnor_6.0 Ensembl8116,348,751 - 116,349,896 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000094298   ⟹   ENSRNOP00000085522
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8108,266,345 - 108,279,115 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000157156   ⟹   ENSRNOP00000108614
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl8117,144,464 - 117,149,185 (-)Ensembl
RefSeq Acc Id: XM_001071401   ⟹   XP_001071401
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88117,144,498 - 117,149,300 (-)NCBI
mRatBN7.28108,265,855 - 108,270,656 (-)NCBI
Rnor_6.08116,348,407 - 116,353,092 (-)NCBI
Rnor_5.08115,704,246 - 115,709,043 (-)NCBI
RGSC_v3.48112,840,587 - 112,844,108 (-)RGD
Sequence:
RefSeq Acc Id: XM_039082622   ⟹   XP_038938550
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88117,144,498 - 117,149,300 (-)NCBI
mRatBN7.28108,265,855 - 108,270,656 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001417328 (Get FASTA)   NCBI Sequence Viewer  
  XP_001071401 (Get FASTA)   NCBI Sequence Viewer  
  XP_038938550 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000075362
  ENSRNOP00000075362.3
  ENSRNOP00000108614
  ENSRNOP00000108614.1
RefSeq Acc Id: XP_001071401   ⟸   XM_001071401
- Peptide Label: isoform X2
- Sequence:
Ensembl Acc Id: ENSRNOP00000075362   ⟸   ENSRNOT00000087306
RefSeq Acc Id: XP_038938550   ⟸   XM_039082622
- Peptide Label: isoform X1
- UniProtKB: A0A0G2KAD9 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000085522   ⟸   ENSRNOT00000094298
Ensembl Acc Id: ENSRNOP00000108614   ⟸   ENSRNOT00000157156

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2KAD9-F1-model_v2 AlphaFold A0A0G2KAD9 1-175 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1589957 AgrOrtholog
BioCyc Gene G2FUF-29186 BioCyc
Ensembl Genes ENSRNOG00000052634 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000087306 ENTREZGENE
  ENSRNOT00000087306.3 UniProtKB/TrEMBL
  ENSRNOT00000157156 ENTREZGENE
  ENSRNOT00000157156.1 UniProtKB/TrEMBL
InterPro DUF4714 UniProtKB/TrEMBL
NCBI Gene 689621 ENTREZGENE
PANTHER LEUCINE-RICH SINGLE-PASS MEMBRANE PROTEIN 2 UniProtKB/TrEMBL
  PTHR37333 UniProtKB/TrEMBL
Pfam DUF4714 UniProtKB/TrEMBL
PhenoGen Lsmem2 PhenoGen
RatGTEx ENSRNOG00000052634 RatGTEx
UniProt A0A0G2KAD9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6A425 ENTREZGENE
  A0ABK0M0Z4_RAT UniProtKB/TrEMBL
  A6I2Z0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-03-20 Lsmem2  leucine-rich single-pass membrane protein 2  LOC689621  hypothetical protein LOC689621  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC689621  hypothetical protein LOC689621  LOC686484  hypothetical protein LOC686484  Data merged from RGD:1597600 1643240 APPROVED
2006-11-20 LOC689621  hypothetical protein LOC689621      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-20 LOC686484  hypothetical protein LOC686484      Symbol and Name status set to provisional 70820 PROVISIONAL