Lrrtm1 (leucine rich repeat transmembrane neuronal 1) - Rat Genome Database
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Gene: Lrrtm1 (leucine rich repeat transmembrane neuronal 1) Mus musculus
Analyze
Symbol: Lrrtm1
Name: leucine rich repeat transmembrane neuronal 1
RGD ID: 1622254
MGI Page MGI
Description: Involved in several processes, including long-term synaptic potentiation; negative regulation of receptor internalization; and positive regulation of synapse assembly. Predicted to localize to several cellular components, including GABA-ergic synapse; glutamatergic synapse; and integral component of postsynaptic specialization membrane. Is expressed in several structures, including central nervous system; future brain; limb; peripheral nervous system; and sensory organ. Used to study schizophrenia. Orthologous to human LRRTM1 (leucine rich repeat transmembrane neuronal 1); INTERACTS WITH 3,4-methylenedioxymethamphetamine; choline; ethanol.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: 4632401D06Rik; AW125451; leucine-rich repeat transmembrane neuronal 1; leucine-rich repeat transmembrane neuronal protein 1
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39677,192,762 - 77,236,898 (+)NCBIGRCm39mm39
GRCm38677,229,210 - 77,259,915 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl677,242,689 - 77,257,791 (+)EnsemblGRCm38mm10GRCm38
MGSCv37677,192,711 - 77,195,511 (+)NCBIGRCm37mm9NCBIm37
MGSCv36677,172,238 - 77,187,272 (+)NCBImm8
Celera679,273,556 - 79,276,356 (+)NCBICelera
Cytogenetic Map6C3NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

References

Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:12676565   PMID:15489334   PMID:16141072   PMID:16141073   PMID:16602821  
PMID:16860615   PMID:17273929   PMID:19285470   PMID:19554387   PMID:20562862   PMID:21267068   PMID:21519551   PMID:21788371   PMID:21818371   PMID:21873635   PMID:23089646   PMID:23931994  
PMID:24613359   PMID:24952961   PMID:25527504   PMID:28671696   PMID:29424692   PMID:29784826   PMID:29983322  


Genomics

Comparative Map Data
Lrrtm1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39677,192,762 - 77,236,898 (+)NCBIGRCm39mm39
GRCm38677,229,210 - 77,259,915 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl677,242,689 - 77,257,791 (+)EnsemblGRCm38mm10GRCm38
MGSCv37677,192,711 - 77,195,511 (+)NCBIGRCm37mm9NCBIm37
MGSCv36677,172,238 - 77,187,272 (+)NCBImm8
Celera679,273,556 - 79,276,356 (+)NCBICelera
Cytogenetic Map6C3NCBI
LRRTM1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl280,288,351 - 80,304,752 (-)EnsemblGRCh38hg38GRCh38
GRCh38280,301,878 - 80,304,752 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37280,529,003 - 80,531,877 (-)NCBIGRCh37GRCh37hg19GRCh37
GRCh37280,515,481 - 80,531,718 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36280,382,514 - 80,384,998 (-)NCBINCBI36hg18NCBI36
Build 34280,436,963 - 80,443,510NCBI
Celera280,357,641 - 80,360,125 (-)NCBI
Cytogenetic Map2p12NCBI
HuRef280,264,234 - 80,266,718 (-)NCBIHuRef
CHM1_1280,458,756 - 80,461,240 (-)NCBICHM1_1
LRRTM1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.24109,701,815 - 109,718,924 (+)NCBI
Rnor_6.0 Ensembl4108,301,129 - 108,316,373 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.04108,300,927 - 108,316,373 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.04173,006,611 - 173,022,018 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44111,166,760 - 111,182,344 (+)NCBIRGSC3.4rn4RGSC3.4
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
PanPan1.12A81,940,008 - 81,956,386 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A81,953,891 - 81,955,459 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02A80,376,582 - 80,392,899 (-)NCBIMhudiblu_PPA_v0panPan3
LRRTM1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl1743,834,562 - 43,836,130 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.11743,833,906 - 43,842,911 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Lrrtm1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049365565,915,265 - 5,934,004 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LRRTM1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl363,587,499 - 63,590,407 (+)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 - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11426,926,681 - 26,929,347 (+)NCBI
ChlSab1.1 Ensembl1426,927,470 - 26,929,038 (+)Ensembl
Lrrtm1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474922,695,726 - 22,698,161 (+)NCBI

Position Markers
AW125451  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38677,245,123 - 77,245,258UniSTSGRCm38
MGSCv37677,195,117 - 77,195,252UniSTSGRCm37
Celera679,275,962 - 79,276,097UniSTS
Cytogenetic Map6B3-DUniSTS
Cytogenetic Map6C3UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
25440480Moaq2_mmodifier of alien QTL 2 (mouse)61117500000Mouse
26884414Bzwq12_mbi-zygomatic width QTL 12, 16 week (mouse)63400000139100000Mouse
1300556Cia6_mcollagen induced arthritis QTL 6 (mouse)Not determined6446488487426034Mouse
4142126W3q3_mweight 3 weeks QTL 3 (mouse)Not determined450382396656149Mouse
4142361W10q11_mweight 10 weeks QTL 11 (mouse)Not determined450382396656149Mouse
4142271Egq8_mearly growth QTL 8 (mouse)Not determined450382396656149Mouse
4142232W6q4_mweight 6 weeks QTL 4 (mouse)Not determined450382396656149Mouse
26884441Sklq3_mskull length QTL 3, 5 week (mouse)6760000080600000Mouse
13208564Bmiq7_mbody mass index QTL 7 (mouse)62500000080000000Mouse
4141782Mrdq5_mmodifier of retinal degeneration QTL 5 (mouse)Not determined3285065078238974Mouse
1558984Cplaq9_mcircadian period of locomotor activity 9 (mouse)Not determined63866962592607450Mouse
12910785Pwgrq16_mpost-weaning growth rate QTL 16 (mouse)64382681377811523Mouse
12910798Pwgrq5_mpre-weaning growth rate QTL 5 (mouse)64382681377811523Mouse
12910802Pwbwq12_mpost-weaning body weight QTL 12 (mouse)64382681377811523Mouse
12910807Pwbwq11_mpost-weaning body weight QTL 11 (mouse)64382681377811523Mouse
12910809Pwbwq10_mpost-weaning body weight QTL 10 (mouse)64382681377811523Mouse
12910820Ogrq3_moverall growth rate QTL 3 (mouse)64382681377811523Mouse
1300618Pgia19_mproteoglycan induced arthritis 19 (mouse)Not determined64531405987426034Mouse
10412157Fl1n_mfatty liver 1 in NSY (mouse)Not determined645314059128835032Mouse
4142259Tabw2_mtally ho associated body weight 2 (mouse)Not determined46935985136423692Mouse
25314319Histh6_mhistamine hypersensitivity 6 (mouse)648720000125360000Mouse
25314320Histh5_mhistamine hypersensitivity 5 (mouse)648720000148450000Mouse
1301962Eila2_methanol induced locomotor activity 2 (mouse)Not determined648726556125356785Mouse
1301254Skts11_mskin tumor susceptibility 11 (mouse)Not determined65117915085179300Mouse
1357683Igf1sl1_mIGF-1 serum levels 1 (mouse)Not determined652161713116155267Mouse
4141028Mclr_mmethylcholanthrene lymphoma resistance (mouse)Not determined5437342788379171Mouse
15039373Adip28_madiposity 28 (mouse)65630821190308211Mouse
15039375Bw41_mbody weight QTL 41 (mouse)65630821190308211Mouse
1558977Skmw10_mskeletal muscle weight 10 (mouse)Not determined65844758392447710Mouse
10043972Obq28_mobesity QTL 28 (mouse)Not determined65854043392540433Mouse
1301740Bwq2_mbody weight QTL 2 (mouse)Not determined66005768094057799Mouse
1301369Im4_mimmunoregulatory 4 (mouse)Not determined66348473897484905Mouse
1300650Bw18_mbody weight QTL 18 (mouse)Not determined666713869100714031Mouse
1301876Bits2_mbitterness sensitivity 2 (mouse)Not determined670425898104426034Mouse
1301813Skl3_mskeletal size (tail length) 3 (mouse)Not determined670425898104426034Mouse
1301034Egrm2_mearly growth rate (mouse)Not determined670425898104426034Mouse
4141990Etax6_methanol induced ataxia 6 (mouse)Not determined7132262186275719Mouse
1302020Bbaa20_mB.burgdorferi-associated arthritis 20 (mouse)Not determined67132262193464093Mouse
1300869Stheal5_msoft tissue heal 5 (mouse)Not determined671575060105575178Mouse
1300954Fcsa1_mfemoral cross-sectional area 1 (mouse)Not determined671981024105981170Mouse
1301521Pas1c_mpulmonary adenoma susceptibility 1c (mouse)Not determined671981024105981170Mouse
13506930Recrq9_mrecombination rate in male meiosis QTL 9 (mouse)673500000134700000Mouse
1301320Ots1_movarian teratoma susceptibility 1 (mouse)Not determined675447583104503555Mouse
1301571Arrd1_mage-related retinal degeneration 1 (mouse)Not determined67554435692607450Mouse
1300674Nidd3n_mnon-insulin-dependent diabetes mellitus 3 in NSY (mouse)Not determined67554435694225955Mouse
10412195Efw_mepididymal fat weight (mouse)Not determined67554435694225955Mouse
10043901Pfat5_mpredicted fat percentage 5 (mouse)Not determined675607306109607450Mouse
10412208Cypr4_mcytokine production 4 (mouse)Not determined675716503109716697Mouse
1357875Pfat2_mpredicted fat percentage 2 (mouse)Not determined676463949110464093Mouse
14697704Stsl4_mSalmonella typhimurium susceptibility locus 4 (mouse)67710000090000000Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:991
Count of miRNA genes:466
Interacting mature miRNAs:542
Transcripts:ENSMUST00000020400, ENSMUST00000159616, ENSMUST00000161677, ENSMUST00000161811
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.


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001362109 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_028880 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_155299 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_155300 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030255644 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036152371 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036152372 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036152373 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC116787 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC121356 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK014545 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK053345 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK053364 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK080836 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK136857 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY182025 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC027803 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BQ176603 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BY724290 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466523 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000020400   ⟹   ENSMUSP00000020400
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl677,242,689 - 77,257,791 (+)Ensembl
RefSeq Acc Id: ENSMUST00000159616   ⟹   ENSMUSP00000125207
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl677,242,697 - 77,245,517 (+)Ensembl
RefSeq Acc Id: ENSMUST00000161677   ⟹   ENSMUSP00000124373
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl677,242,718 - 77,245,511 (+)Ensembl
RefSeq Acc Id: ENSMUST00000161811   ⟹   ENSMUSP00000124948
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl677,242,922 - 77,244,112 (+)Ensembl
RefSeq Acc Id: NM_001362109   ⟹   NP_001349038
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39677,219,460 - 77,222,500 (+)NCBI
GRCm38677,242,477 - 77,245,517 (+)NCBI
Sequence:
RefSeq Acc Id: NM_028880   ⟹   NP_083156
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39677,219,460 - 77,222,500 (+)NCBI
GRCm38677,242,477 - 77,245,517 (+)NCBI
MGSCv37677,192,711 - 77,195,511 (+)RGD
Celera679,273,556 - 79,276,356 (+)RGD
cM Map6 ENTREZGENE
Sequence:
RefSeq Acc Id: NR_155299
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39677,219,460 - 77,236,898 (+)NCBI
GRCm38677,242,477 - 77,259,915 (+)NCBI
Sequence:
RefSeq Acc Id: NR_155300
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39677,219,460 - 77,236,898 (+)NCBI
GRCm38677,242,477 - 77,259,915 (+)NCBI
Sequence:
RefSeq Acc Id: XM_030255644   ⟹   XP_030111504
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39677,192,762 - 77,222,498 (+)NCBI
GRCm38677,229,210 - 77,245,515 (+)NCBI
Sequence:
RefSeq Acc Id: XM_036152371   ⟹   XP_036008264
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39677,219,163 - 77,222,498 (+)NCBI
RefSeq Acc Id: XM_036152372   ⟹   XP_036008265
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39677,219,163 - 77,222,498 (+)NCBI
RefSeq Acc Id: XM_036152373   ⟹   XP_036008266
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39677,192,762 - 77,222,498 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_083156   ⟸   NM_028880
- Peptide Label: precursor
- UniProtKB: Q8K377 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_030111504   ⟸   XM_030255644
- Peptide Label: isoform X1
RefSeq Acc Id: NP_001349038   ⟸   NM_001362109
- Peptide Label: precursor
RefSeq Acc Id: ENSMUSP00000125207   ⟸   ENSMUST00000159616
RefSeq Acc Id: ENSMUSP00000020400   ⟸   ENSMUST00000020400
RefSeq Acc Id: ENSMUSP00000124373   ⟸   ENSMUST00000161677
RefSeq Acc Id: ENSMUSP00000124948   ⟸   ENSMUST00000161811
RefSeq Acc Id: XP_036008266   ⟸   XM_036152373
- Peptide Label: isoform X1
RefSeq Acc Id: XP_036008265   ⟸   XM_036152372
- Peptide Label: isoform X1
RefSeq Acc Id: XP_036008264   ⟸   XM_036152371
- Peptide Label: isoform X1
Protein Domains
LRRCT   LRRNT

Promoters
RGD ID:6890054
Promoter ID:EPDNEW_M8478
Type:initiation region
Name:Lrrtm1_1
Description:Mus musculus leucine rich repeat transmembrane neuronal 1 , transcriptvariant 2, 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
GRCm38677,242,689 - 77,242,749EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2389173 AgrOrtholog
Ensembl Genes ENSMUSG00000060780 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSMUSP00000020400 UniProtKB/Swiss-Prot
  ENSMUSP00000124373 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000124948 UniProtKB/TrEMBL
  ENSMUSP00000125207 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000020400 UniProtKB/Swiss-Prot
  ENSMUST00000159616 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000161677 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000161811 UniProtKB/TrEMBL
Gene3D-CATH 3.80.10.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Leu-rich_rpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Leu-rich_rpt_typical-subtyp UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LRR_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:74342 UniProtKB/Swiss-Prot
MGD MGI:2389173 ENTREZGENE
NCBI Gene 74342 ENTREZGENE
Pfam LRR_8 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Lrrtm1 PhenoGen
PROSITE LRR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART LRR_TYP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt E0CX41_MOUSE UniProtKB/TrEMBL
  LRRT1_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q3UVX1 UniProtKB/Swiss-Prot