Lrrtm1 (leucine rich repeat transmembrane neuronal 1) - Rat Genome Database

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Gene: Lrrtm1 (leucine rich repeat transmembrane neuronal 1) Ictidomys tridecemlineatus
Analyze
Symbol: Lrrtm1
Name: leucine rich repeat transmembrane neuronal 1
RGD ID: 12469115
Description: INVOLVED IN establishment of localization in cell (ortholog); exploration behavior (ortholog); locomotory behavior (ortholog); ASSOCIATED WITH Complex Cortical Dysplasia with Other Brain Malformations 9 (ortholog); genetic disease (ortholog); schizophrenia (ortholog); FOUND IN cell surface (ortholog); excitatory synapse (ortholog); GABA-ergic synapse (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: leucine rich repeat transmembrane neuronal 1, transcript variant X1; leucine rich repeat transmembrane neuronal 1, transcript variant X2; leucine rich repeat transmembrane neuronal 1, transcript variant X3; leucine-rich repeat transmembrane neuronal protein 1
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_0244062924,806,393 - 4,822,627 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365565,928,622 - 5,931,499 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365565,915,265 - 5,934,004 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:22301074  


Genomics

Comparative Map Data
Lrrtm1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244062924,806,393 - 4,822,627 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365565,928,622 - 5,931,499 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365565,915,265 - 5,934,004 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LRRTM1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38280,288,356 - 80,304,752 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl280,288,351 - 80,304,752 (-)EnsemblGRCh38hg38GRCh38
GRCh37280,529,003 - 80,531,877 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36280,382,514 - 80,384,998 (-)NCBINCBI36Build 36hg18NCBI36
Build 34280,436,963 - 80,443,510NCBI
Celera280,357,641 - 80,360,125 (-)NCBICelera
Cytogenetic Map2p12NCBI
HuRef280,264,234 - 80,266,718 (-)NCBIHuRef
CHM1_1280,458,756 - 80,461,240 (-)NCBICHM1_1
T2T-CHM13v2.0280,302,025 - 80,304,899 (-)NCBIT2T-CHM13v2.0
Lrrtm1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39677,192,762 - 77,236,898 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl677,219,672 - 77,234,774 (+)EnsemblGRCm39 Ensembl
GRCm38677,229,210 - 77,259,915 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl677,242,689 - 77,257,791 (+)EnsemblGRCm38mm10GRCm38
MGSCv37677,192,711 - 77,195,511 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36677,172,238 - 77,187,272 (+)NCBIMGSCv36mm8
Celera679,273,556 - 79,276,356 (+)NCBICelera
Cytogenetic Map6C3NCBI
cM Map633.89NCBI
LRRTM1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84111,246,213 - 111,295,638 (+)NCBIGRCr8
mRatBN7.24109,701,815 - 109,718,924 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4109,701,815 - 109,717,184 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4115,107,415 - 115,122,780 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04110,882,531 - 110,897,892 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04109,502,694 - 109,518,062 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.04108,300,927 - 108,316,373 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4108,301,129 - 108,316,373 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04173,006,611 - 173,022,018 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44111,166,760 - 111,182,344 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera498,746,001 - 98,761,096 (+)NCBICelera
Cytogenetic Map4q33NCBI
Lrrtm1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554246,322,284 - 6,337,550 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554246,322,284 - 6,337,550 (+)NCBIChiLan1.0ChiLan1.0
LRRTM1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21246,047,115 - 46,063,509 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12A46,050,330 - 46,066,263 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02A80,376,582 - 80,392,899 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12A81,940,008 - 81,956,386 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A81,953,891 - 81,955,459 (-)Ensemblpanpan1.1panPan2
LRRTM1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11743,833,906 - 43,842,911 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1743,834,562 - 43,836,130 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1743,529,484 - 43,532,366 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01744,646,891 - 44,649,819 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1744,646,870 - 44,649,817 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11743,729,863 - 43,732,734 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01743,765,294 - 43,768,169 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01744,269,225 - 44,272,140 (+)NCBIUU_Cfam_GSD_1.0
LRRTM1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl363,587,499 - 63,590,405 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1363,585,784 - 63,590,368 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2366,675,615 - 66,678,394 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LRRTM1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11426,926,681 - 26,929,347 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1426,927,470 - 26,929,038 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604585,377,470 - 85,380,341 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lrrtm1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474922,695,241 - 22,698,604 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474922,695,726 - 22,698,161 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSSTOT00000026311   ⟹   ENSSTOP00000015152
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049365565,928,622 - 5,931,499 (-)Ensembl
RefSeq Acc Id: XM_005329402   ⟹   XP_005329459
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_0244062924,806,393 - 4,809,266 (+)NCBI
SpeTri2.0NW_0049365565,928,630 - 5,934,004 (-)NCBI
Sequence:
RefSeq Acc Id: XR_002484422
Type: NON-CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_0244062924,806,443 - 4,822,627 (+)NCBI
SpeTri2.0NW_0049365565,915,265 - 5,934,004 (-)NCBI
Sequence:
RefSeq Acc Id: XR_005727363
Type: NON-CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_0244062924,806,393 - 4,822,627 (+)NCBI
RefSeq Acc Id: XR_005727364
Type: NON-CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_0244062924,806,443 - 4,822,627 (+)NCBI
Protein Sequences
Protein RefSeqs XP_005329459 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000015152.1
GenBank Protein KAG3266975 (Get FASTA)   NCBI Sequence Viewer  
  KAG3266976 (Get FASTA)   NCBI Sequence Viewer  
  KAG3266977 (Get FASTA)   NCBI Sequence Viewer  
  KAG3266978 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: XP_005329459   ⟸   XM_005329402
- UniProtKB: I3MSQ7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSTOP00000015152   ⟸   ENSSTOT00000026311


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000028545 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000026311.2 UniProtKB/TrEMBL
Gene3D-CATH 3.80.10.10 UniProtKB/TrEMBL
InterPro Leu-rich_rpt UniProtKB/TrEMBL
  Leu-rich_rpt_typical-subtyp UniProtKB/TrEMBL
  LRR_dom_sf UniProtKB/TrEMBL
NCBI Gene Lrrtm1 ENTREZGENE
PANTHER LEUCINE-RICH REPEAT TRANSMEMBRANE NEURONAL PROTEIN 1 UniProtKB/TrEMBL
  SLIT RELATED LEUCINE-RICH REPEAT NEURONAL PROTEIN UniProtKB/TrEMBL
Pfam LRR_8 UniProtKB/TrEMBL
PROSITE LRR UniProtKB/TrEMBL
SMART LRR_TYP UniProtKB/TrEMBL
Superfamily-SCOP L domain-like UniProtKB/TrEMBL
UniProt I3MSQ7 ENTREZGENE, UniProtKB/TrEMBL