LRRTM2 (leucine rich repeat transmembrane neuronal 2) - Rat Genome Database

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Gene: LRRTM2 (leucine rich repeat transmembrane neuronal 2) Homo sapiens
Analyze
Symbol: LRRTM2
Name: leucine rich repeat transmembrane neuronal 2
RGD ID: 1345909
HGNC Page HGNC:19409
Description: Predicted to enable neurexin family protein binding activity. Predicted to be involved in regulation of postsynaptic density assembly. Predicted to act upstream of or within several processes, including long-term synaptic potentiation; negative regulation of receptor internalization; and positive regulation of synapse assembly. Is active in GABA-ergic synapse and postsynaptic specialization membrane.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: FLJ76283; FLJ99831; leucine-rich repeat neuronal 2 protein; leucine-rich repeat transmembrane neuronal 2 protein; leucine-rich repeat transmembrane neuronal protein 2
RGD Orthologs
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385138,868,921 - 138,875,335 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl5138,868,921 - 138,875,368 (-)EnsemblGRCh38hg38GRCh38
GRCh375138,204,610 - 138,211,024 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365138,232,978 - 138,238,908 (-)NCBINCBI36Build 36hg18NCBI36
Build 345138,232,977 - 138,238,908NCBI
Celera5134,326,860 - 134,332,826 (-)NCBICelera
Cytogenetic Map5q31.2NCBI
HuRef5133,394,868 - 133,400,836 (-)NCBIHuRef
CHM1_15137,637,719 - 137,643,697 (-)NCBICHM1_1
T2T-CHM13v2.05139,395,050 - 139,401,453 (-)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. GOAs Human GO annotations GOA_HUMAN data from the GO Consortium
2. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:9455477   PMID:12477932   PMID:12676565   PMID:15489334   PMID:16344560   PMID:19240791   PMID:21708131   PMID:21873635   PMID:26186194   PMID:27565350   PMID:28514442   PMID:29665387  
PMID:30262834   PMID:30945288   PMID:32296183   PMID:32393512   PMID:33961781  


Genomics

Comparative Map Data
LRRTM2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385138,868,921 - 138,875,335 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl5138,868,921 - 138,875,368 (-)EnsemblGRCh38hg38GRCh38
GRCh375138,204,610 - 138,211,024 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365138,232,978 - 138,238,908 (-)NCBINCBI36Build 36hg18NCBI36
Build 345138,232,977 - 138,238,908NCBI
Celera5134,326,860 - 134,332,826 (-)NCBICelera
Cytogenetic Map5q31.2NCBI
HuRef5133,394,868 - 133,400,836 (-)NCBIHuRef
CHM1_15137,637,719 - 137,643,697 (-)NCBICHM1_1
T2T-CHM13v2.05139,395,050 - 139,401,453 (-)NCBIT2T-CHM13v2.0
Lrrtm2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391835,342,056 - 35,348,077 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1835,342,056 - 35,348,077 (-)EnsemblGRCm39 Ensembl
GRCm381835,209,003 - 35,215,024 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1835,209,003 - 35,215,024 (-)EnsemblGRCm38mm10GRCm38
MGSCv371835,368,657 - 35,374,678 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361835,336,885 - 35,340,892 (-)NCBIMGSCv36mm8
Celera1835,664,662 - 35,670,684 (-)NCBICelera
Cytogenetic Map18B1NCBI
cM Map1818.94NCBI
Lrrtm2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81827,091,919 - 27,096,967 (-)NCBIGRCr8
mRatBN7.21826,817,816 - 26,822,864 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1826,817,816 - 26,822,864 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1826,945,217 - 26,950,265 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01827,708,134 - 27,713,182 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01827,043,038 - 27,048,086 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01828,012,877 - 28,017,925 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1828,012,877 - 28,017,925 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01827,722,686 - 27,727,734 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41827,722,717 - 27,727,765 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1826,552,974 - 26,558,022 (-)NCBICelera
Cytogenetic Map18p11NCBI
Lrrtm2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554181,636,828 - 1,643,588 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554181,636,906 - 1,643,430 (+)NCBIChiLan1.0ChiLan1.0
LRRTM2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v24134,143,569 - 134,149,817 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan15132,283,123 - 132,289,371 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v05134,247,933 - 134,254,188 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.15140,373,790 - 140,380,127 (-)NCBIpanpan1.1PanPan1.1panPan2
LRRTM2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11126,392,642 - 26,397,018 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1126,392,734 - 26,396,223 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1125,159,555 - 25,163,871 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01127,248,202 - 27,252,518 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1127,248,255 - 27,252,533 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11125,955,564 - 25,959,881 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01125,775,869 - 25,782,210 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01126,442,410 - 26,446,727 (-)NCBIUU_Cfam_GSD_1.0
Lrrtm2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213153,637,684 - 153,641,722 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365317,967,213 - 7,974,266 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365317,968,111 - 7,973,823 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LRRTM2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl2140,803,626 - 140,809,493 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.12140,803,624 - 140,810,013 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.22146,698,365 - 146,704,568 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LRRTM2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12341,534,757 - 41,540,372 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2341,533,973 - 41,539,915 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603436,344,313 - 36,349,978 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lrrtm2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474331,644,209 - 31,651,688 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474331,648,543 - 31,651,772 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in LRRTM2
11 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 5q23.3-33.2(chr5:130860928-155321811)x3 copy number gain See cases [RCV000051193] Chr5:130860928..155321811 [GRCh38]
Chr5:130196621..154701371 [GRCh37]
Chr5:130224520..154681564 [NCBI36]
Chr5:5q23.3-33.2
pathogenic
GRCh38/hg38 5q31.2-32(chr5:138871137-145812309)x1 copy number loss See cases [RCV000052142] Chr5:138871137..145812309 [GRCh38]
Chr5:138206826..145191872 [GRCh37]
Chr5:138234725..145172065 [NCBI36]
Chr5:5q31.2-32
pathogenic
GRCh38/hg38 5q31.2(chr5:138738648-139442996)x1 copy number loss See cases [RCV000052579] Chr5:138738648..139442996 [GRCh38]
Chr5:138074337..138778685 [GRCh37]
Chr5:138102236..138806584 [NCBI36]
Chr5:5q31.2
uncertain significance
GRCh38/hg38 5q21.3-33.2(chr5:106619588-156124387)x1 copy number loss See cases [RCV000053524] Chr5:106619588..156124387 [GRCh38]
Chr5:105955289..155551397 [GRCh37]
Chr5:105983188..155483975 [NCBI36]
Chr5:5q21.3-33.2
pathogenic
GRCh38/hg38 5q31.1-31.3(chr5:135297294-140106003)x3 copy number gain See cases [RCV000133750] Chr5:135297294..140106003 [GRCh38]
Chr5:134632984..139485588 [GRCh37]
Chr5:134660883..139465772 [NCBI36]
Chr5:5q31.1-31.3
pathogenic
GRCh38/hg38 5q31.2-31.3(chr5:137836682-140696361)x3 copy number gain See cases [RCV000134725] Chr5:137836682..140696361 [GRCh38]
Chr5:137172371..140075946 [GRCh37]
Chr5:137200270..140056130 [NCBI36]
Chr5:5q31.2-31.3
pathogenic
GRCh38/hg38 5q31.2(chr5:138179894-139039890)x3 copy number gain See cases [RCV000135679] Chr5:138179894..139039890 [GRCh38]
Chr5:137515583..138375579 [GRCh37]
Chr5:137543482..138403478 [NCBI36]
Chr5:5q31.2
uncertain significance
GRCh38/hg38 5q23.3-33.2(chr5:129847794-153353546)x3 copy number gain See cases [RCV000138808] Chr5:129847794..153353546 [GRCh38]
Chr5:129183487..152733106 [GRCh37]
Chr5:129211386..152713299 [NCBI36]
Chr5:5q23.3-33.2
pathogenic
NM_015564.3(LRRTM2):c.4+18T>G single nucleotide variant Hereditary cancer-predisposing syndrome [RCV000209651] Chr5:138874890 [GRCh38]
Chr5:138210579 [GRCh37]
Chr5:5q31.2
likely benign
GRCh37/hg19 5q15-35.3(chr5:94844077-178830410)x3 copy number gain not provided [RCV000487658] Chr5:94844077..178830410 [GRCh37]
Chr5:5q15-35.3
likely benign
GRCh37/hg19 5q23.3-33.3(chr5:130125085-157574910)x3 copy number gain See cases [RCV000449349] Chr5:130125085..157574910 [GRCh37]
Chr5:5q23.3-33.3
pathogenic
GRCh37/hg19 5p15.33-q35.3(chr5:113577-180719789) copy number gain See cases [RCV000510723] Chr5:113577..180719789 [GRCh37]
Chr5:5p15.33-q35.3
pathogenic
GRCh37/hg19 5q21.3-35.3(chr5:106716357-180687338)x3 copy number gain See cases [RCV000448245] Chr5:106716357..180687338 [GRCh37]
Chr5:5q21.3-35.3
pathogenic
GRCh37/hg19 5p15.1-q35.2(chr5:17628741-176575720)x1 copy number loss See cases [RCV000511978] Chr5:17628741..176575720 [GRCh37]
Chr5:5p15.1-q35.2
pathogenic
GRCh37/hg19 5p15.33-q35.3(chr5:113577-180719789)x3 copy number gain See cases [RCV000512039] Chr5:113577..180719789 [GRCh37]
Chr5:5p15.33-q35.3
pathogenic
NC_000005.9:g.(?_86400000)_(154000000_?)del deletion Familial adenomatous polyposis 1 [RCV002231249]|Hereditary cancer-predisposing syndrome [RCV000554476] Chr5:86400000..154000000 [GRCh37]
Chr5:5q14.3-33.2
pathogenic
GRCh37/hg19 5p15.33-q35.3(chr5:25328-180693344)x3 copy number gain not provided [RCV000744323] Chr5:25328..180693344 [GRCh37]
Chr5:5p15.33-q35.3
pathogenic
GRCh37/hg19 5p15.33-q35.3(chr5:13648-180905029)x3 copy number gain not provided [RCV000744317] Chr5:13648..180905029 [GRCh37]
Chr5:5p15.33-q35.3
pathogenic
NC_000005.10:g.(?_138781925)_(138934089_?)dup duplication not provided [RCV001031306] Chr5:138117614..138269778 [GRCh37]
Chr5:5q31.2
uncertain significance
NM_015564.3(LRRTM2):c.905C>A (p.Ser302Tyr) single nucleotide variant Inborn genetic diseases [RCV003270753] Chr5:138873656 [GRCh38]
Chr5:138209345 [GRCh37]
Chr5:5q31.2
uncertain significance
NM_015564.3(LRRTM2):c.*3762A>G single nucleotide variant Hereditary cancer-predisposing syndrome [RCV000209513] Chr5:138869248 [GRCh38]
Chr5:138204937 [GRCh37]
Chr5:5q31.2
likely benign
NC_000005.10:g.(?_138781915)_(138934099_?)del deletion not provided [RCV000800667] Chr5:138781915..138934099 [GRCh38]
Chr5:138117604..138269788 [GRCh37]
Chr5:5q31.2
uncertain significance
NC_000005.9:g.(?_138117604)_(138269788_?)dup duplication not provided [RCV000794141] Chr5:138781915..138934099 [GRCh38]
Chr5:138117604..138269788 [GRCh37]
Chr5:5q31.2
uncertain significance
Single allele deletion Neurodevelopmental disorder [RCV000787436] Chr5:14685137..149511942 [GRCh37]
Chr5:5p15.2-q32
uncertain significance
GRCh37/hg19 5q31.2(chr5:137865800-139097368)x1 copy number loss not provided [RCV000846144] Chr5:137865800..139097368 [GRCh37]
Chr5:5q31.2
pathogenic
NC_000005.9:g.(?_138117614)_(138269778_?)del deletion not provided [RCV003107542] Chr5:138117614..138269778 [GRCh37]
Chr5:5q31.2
uncertain significance
NC_000005.9:g.(?_138117614)_(138287593_?)dup duplication not provided [RCV003107546] Chr5:138117614..138287593 [GRCh37]
Chr5:5q31.2
uncertain significance
NC_000005.9:g.(?_138145717)_(138269778_?)dup duplication not provided [RCV003107547] Chr5:138145717..138269778 [GRCh37]
Chr5:5q31.2
uncertain significance
GRCh37/hg19 5q31.2(chr5:138101724-138876953)x3 copy number gain not provided [RCV001259915] Chr5:138101724..138876953 [GRCh37]
Chr5:5q31.2
uncertain significance
GRCh37/hg19 5q31.2(chr5:137754277-138994590)x1 copy number loss not provided [RCV001270645] Chr5:137754277..138994590 [GRCh37]
Chr5:5q31.2
likely pathogenic
NC_000005.9:g.(?_138088085)_(138271723_?)del deletion not provided [RCV001322784] Chr5:138088085..138271723 [GRCh37]
Chr5:5q31.2
uncertain significance
NC_000005.9:g.(?_138118846)_(138269778_?)del deletion not provided [RCV001322785] Chr5:138118846..138269778 [GRCh37]
Chr5:5q31.2
uncertain significance
NC_000005.9:g.(?_136633338)_(140998481_?)dup duplication PURA-related severe neonatal hypotonia-seizures-encephalopathy syndrome [RCV001339088] Chr5:136633338..140998481 [GRCh37]
Chr5:5q31.2-31.3
uncertain significance
GRCh37/hg19 5q23.3-33.3(chr5:130125085-157574910) copy number gain not specified [RCV002053526] Chr5:130125085..157574910 [GRCh37]
Chr5:5q23.3-33.3
pathogenic
NC_000005.9:g.(?_138117614)_(138266634_?)dup duplication not provided [RCV001995537] Chr5:138117614..138266634 [GRCh37]
Chr5:5q31.2
uncertain significance
NC_000005.9:g.(?_136957787)_(140078137_?)dup duplication PURA-related severe neonatal hypotonia-seizures-encephalopathy syndrome [RCV003116437] Chr5:136957787..140078137 [GRCh37]
Chr5:5q31.2-31.3
uncertain significance
NC_000005.9:g.(?_136957787)_(138861289_?)del deletion STING-associated vasculopathy with onset in infancy [RCV003113978] Chr5:136957787..138861289 [GRCh37]
Chr5:5q31.2
uncertain significance
NM_015564.3(LRRTM2):c.1412C>T (p.Thr471Ile) single nucleotide variant Inborn genetic diseases [RCV002997758] Chr5:138873149 [GRCh38]
Chr5:138208838 [GRCh37]
Chr5:5q31.2
uncertain significance
GRCh37/hg19 5q31.2(chr5:137893096-138868605)x3 copy number gain not provided [RCV002475593] Chr5:137893096..138868605 [GRCh37]
Chr5:5q31.2
uncertain significance
NM_015564.3(LRRTM2):c.254G>C (p.Ser85Thr) single nucleotide variant Inborn genetic diseases [RCV002660409] Chr5:138874307 [GRCh38]
Chr5:138209996 [GRCh37]
Chr5:5q31.2
uncertain significance
NM_015564.3(LRRTM2):c.541C>T (p.Arg181Cys) single nucleotide variant Inborn genetic diseases [RCV002737196] Chr5:138874020 [GRCh38]
Chr5:138209709 [GRCh37]
Chr5:5q31.2
uncertain significance
NM_015564.3(LRRTM2):c.1112C>T (p.Ala371Val) single nucleotide variant Inborn genetic diseases [RCV002940202] Chr5:138873449 [GRCh38]
Chr5:138209138 [GRCh37]
Chr5:5q31.2
uncertain significance
NM_015564.3(LRRTM2):c.950C>T (p.Ala317Val) single nucleotide variant Inborn genetic diseases [RCV002941633] Chr5:138873611 [GRCh38]
Chr5:138209300 [GRCh37]
Chr5:5q31.2
uncertain significance
NM_015564.3(LRRTM2):c.520G>A (p.Val174Ile) single nucleotide variant Inborn genetic diseases [RCV003194659] Chr5:138874041 [GRCh38]
Chr5:138209730 [GRCh37]
Chr5:5q31.2
uncertain significance
NM_015564.3(LRRTM2):c.1214T>C (p.Val405Ala) single nucleotide variant Inborn genetic diseases [RCV003262898] Chr5:138873347 [GRCh38]
Chr5:138209036 [GRCh37]
Chr5:5q31.2
uncertain significance
NM_015564.3(LRRTM2):c.1465C>A (p.Pro489Thr) single nucleotide variant Inborn genetic diseases [RCV003285146] Chr5:138873096 [GRCh38]
Chr5:138208785 [GRCh37]
Chr5:5q31.2
uncertain significance
NM_015564.3(LRRTM2):c.1136C>T (p.Thr379Ile) single nucleotide variant Inborn genetic diseases [RCV003367598] Chr5:138873425 [GRCh38]
Chr5:138209114 [GRCh37]
Chr5:5q31.2
uncertain significance
NM_015564.3(LRRTM2):c.698C>T (p.Thr233Met) single nucleotide variant Inborn genetic diseases [RCV003349444] Chr5:138873863 [GRCh38]
Chr5:138209552 [GRCh37]
Chr5:5q31.2
uncertain significance
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1910
Count of miRNA genes:837
Interacting mature miRNAs:964
Transcripts:ENST00000274711, ENST00000518785, ENST00000521094, ENST00000523537
Prediction methods:Microtar, 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.

Markers in Region
WI-17966  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh375138,204,641 - 138,204,768UniSTSGRCh37
Build 365138,232,540 - 138,232,667RGDNCBI36
Celera5134,326,421 - 134,326,548RGD
Cytogenetic Map5q31.2UniSTS
HuRef5133,394,429 - 133,394,556UniSTS
GeneMap99-GB4 RH Map5526.62UniSTS
Whitehead-RH Map5435.6UniSTS
RH91185  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh375138,205,109 - 138,205,280UniSTSGRCh37
Build 365138,233,008 - 138,233,179RGDNCBI36
Celera5134,326,890 - 134,327,061RGD
Cytogenetic Map5q31.2UniSTS
HuRef5133,394,898 - 133,395,069UniSTS
GeneMap99-GB4 RH Map5526.62UniSTS
SHGC-2340  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh375138,205,105 - 138,205,300UniSTSGRCh37
Build 365138,233,004 - 138,233,199RGDNCBI36
Celera5134,326,886 - 134,327,081RGD
Cytogenetic Map5q31.2UniSTS
HuRef5133,394,894 - 133,395,089UniSTS
GeneMap99-G3 RH Map55131.0UniSTS
D5S1856  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh375138,205,082 - 138,205,381UniSTSGRCh37
Build 365138,232,981 - 138,233,280RGDNCBI36
Celera5134,326,863 - 134,327,162RGD
Cytogenetic Map5q31.2UniSTS
HuRef5133,394,871 - 133,395,170UniSTS
A002T30  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh375138,205,217 - 138,205,367UniSTSGRCh37
Build 365138,233,116 - 138,233,266RGDNCBI36
Celera5134,326,998 - 134,327,148RGD
Cytogenetic Map5q31.2UniSTS
HuRef5133,395,006 - 133,395,156UniSTS
GeneMap99-GB4 RH Map5524.54UniSTS
MARC_13807-13808:1006870442:1  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh375138,209,476 - 138,209,875UniSTSGRCh37
Build 365138,237,375 - 138,237,774RGDNCBI36
Celera5134,331,245 - 134,331,644RGD
HuRef5133,399,255 - 133,399,654UniSTS
Lrrtm2  
Human AssemblyChrPosition (strand)SourceJBrowse
HuRef5133,398,920 - 133,399,557UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system sensory system visual system adipose tissue appendage entire extraembryonic component
High
Medium 2 1 2 1 8 1014 1 1 6 1 1 4
Low 388 101 546 6 193 7 1364 77 2586 52 210 435 2 1 774 755 2
Below cutoff 1961 2652 1078 529 1315 367 2897 2083 126 271 1131 1065 164 429 2027 1

Sequence


RefSeq Acc Id: ENST00000274711   ⟹   ENSP00000274711
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl5138,868,921 - 138,875,335 (-)Ensembl
RefSeq Acc Id: ENST00000518785   ⟹   ENSP00000428398
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl5138,872,632 - 138,875,368 (-)Ensembl
RefSeq Acc Id: ENST00000521094   ⟹   ENSP00000430902
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl5138,872,455 - 138,875,304 (-)Ensembl
RefSeq Acc Id: ENST00000523537
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl5138,874,046 - 138,875,341 (-)Ensembl
RefSeq Acc Id: NM_015564   ⟹   NP_056379
RefSeq Status: VALIDATED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh385138,868,921 - 138,875,335 (-)NCBI
GRCh375138,205,079 - 138,211,057 (-)NCBI
Build 365138,232,978 - 138,238,908 (-)NCBI Archive
Celera5134,326,860 - 134,332,826 (-)RGD
HuRef5133,394,868 - 133,400,836 (-)ENTREZGENE
CHM1_15137,637,719 - 137,643,697 (-)NCBI
T2T-CHM13v2.05139,395,050 - 139,401,453 (-)NCBI
Sequence:
RefSeq Acc Id: NP_056379   ⟸   NM_015564
- Peptide Label: precursor
- UniProtKB: B7ZLN8 (UniProtKB/Swiss-Prot),   A8K4U9 (UniProtKB/Swiss-Prot),   A0AVL3 (UniProtKB/Swiss-Prot),   Q7L770 (UniProtKB/Swiss-Prot),   O43300 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSP00000428398   ⟸   ENST00000518785
RefSeq Acc Id: ENSP00000430902   ⟸   ENST00000521094
RefSeq Acc Id: ENSP00000274711   ⟸   ENST00000274711
Protein Domains
LRRCT   LRRNT

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-O43300-F1-model_v2 AlphaFold O43300 1-516 view protein structure

Promoters
RGD ID:6803003
Promoter ID:HG_KWN:51219
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:CD4+TCell
Transcripts:ENST00000274711,   NM_015564,   UC003LDK.1,   UC003LDL.1,   UC010JEZ.1
Position:
Human AssemblyChrPosition (strand)Source
Build 365138,236,861 - 138,237,361 (+)MPROMDB
RGD ID:6870716
Promoter ID:EPDNEW_H8523
Type:initiation region
Name:LRRTM2_1
Description:leucine rich repeat transmembrane neuronal 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh385138,875,304 - 138,875,364EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:19409 AgrOrtholog
COSMIC LRRTM2 COSMIC
Ensembl Genes ENSG00000146006 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENST00000274711 ENTREZGENE
  ENST00000274711.7 UniProtKB/Swiss-Prot
  ENST00000518785.1 UniProtKB/TrEMBL
  ENST00000521094.2 UniProtKB/TrEMBL
Gene3D-CATH 3.80.10.10 UniProtKB/Swiss-Prot
GTEx ENSG00000146006 GTEx
HGNC ID HGNC:19409 ENTREZGENE
Human Proteome Map LRRTM2 Human Proteome Map
InterPro Leu-rich_rpt UniProtKB/Swiss-Prot
  Leu-rich_rpt_typical-subtyp UniProtKB/Swiss-Prot
  LRR_dom_sf UniProtKB/Swiss-Prot
KEGG Report hsa:26045 UniProtKB/Swiss-Prot
NCBI Gene 26045 ENTREZGENE
OMIM 610868 OMIM
PANTHER LEUCINE RICH REPEAT TRANSMEMBRANE NEURONAL 2 UniProtKB/Swiss-Prot
  SLIT RELATED LEUCINE-RICH REPEAT NEURONAL PROTEIN UniProtKB/Swiss-Prot
Pfam LRR_8 UniProtKB/Swiss-Prot
PharmGKB PA134993038 PharmGKB
PRINTS LEURICHRPT UniProtKB/Swiss-Prot
PROSITE LRR UniProtKB/Swiss-Prot
SMART LRR_TYP UniProtKB/Swiss-Prot
Superfamily-SCOP L domain-like UniProtKB/Swiss-Prot
UniProt A0AVL3 ENTREZGENE
  A8K4U9 ENTREZGENE
  B7ZLN8 ENTREZGENE
  E5RHE5_HUMAN UniProtKB/TrEMBL
  E5RIQ2_HUMAN UniProtKB/TrEMBL
  LRRT2_HUMAN UniProtKB/Swiss-Prot, ENTREZGENE
  Q7L770 ENTREZGENE
UniProt Secondary A0AVL3 UniProtKB/Swiss-Prot
  A8K4U9 UniProtKB/Swiss-Prot
  B7ZLN8 UniProtKB/Swiss-Prot
  Q7L770 UniProtKB/Swiss-Prot