Lrrtm4 (leucine rich repeat transmembrane neuronal 4) - Rat Genome Database

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Gene: Lrrtm4 (leucine rich repeat transmembrane neuronal 4) Ictidomys tridecemlineatus
Analyze
Symbol: Lrrtm4
Name: leucine rich repeat transmembrane neuronal 4
RGD ID: 12599517
Description: ENCODES a protein that exhibits heparan sulfate proteoglycan binding (ortholog); INVOLVED IN AMPA glutamate receptor clustering (ortholog); neurotransmitter-gated ion channel clustering (ortholog); positive regulation of synapse assembly (ortholog); FOUND IN AMPA glutamate receptor complex (ortholog); GABA-ergic synapse (ortholog); glutamatergic synapse (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: leucine-rich repeat transmembrane neuronal protein 4
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244062927,243,844 - 7,977,608 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365562,761,351 - 3,494,059 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365562,760,294 - 3,493,517 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Lrrtm4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244062927,243,844 - 7,977,608 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365562,761,351 - 3,494,059 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365562,760,294 - 3,493,517 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LRRTM4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38276,747,685 - 77,522,376 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl276,747,685 - 77,593,319 (-)EnsemblGRCh38hg38GRCh38
GRCh37276,974,811 - 77,749,502 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36277,597,295 - 77,603,010 (-)NCBINCBI36Build 36hg18NCBI36
Build 34277,655,448 - 77,661,157NCBI
Celera276,805,254 - 77,579,821 (-)NCBICelera
Cytogenetic Map2p12NCBI
HuRef276,709,976 - 77,484,740 (-)NCBIHuRef
CHM1_1276,904,205 - 77,678,822 (-)NCBICHM1_1
T2T-CHM13v2.0276,752,924 - 77,527,386 (-)NCBIT2T-CHM13v2.0
Lrrtm4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39679,995,828 - 80,787,143 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl679,995,860 - 80,787,124 (+)EnsemblGRCm39 Ensembl
GRCm38680,018,858 - 80,810,162 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl680,018,877 - 80,810,143 (+)EnsemblGRCm38mm10GRCm38
MGSCv37679,968,871 - 79,974,926 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36679,948,557 - 79,955,418 (+)NCBIMGSCv36mm8
Celera682,022,464 - 82,028,524 (+)NCBICelera
Cytogenetic Map6C3NCBI
cM Map635.05NCBI
Lrrtm4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84114,103,783 - 114,894,696 (+)NCBIGRCr8
mRatBN7.24112,545,874 - 113,338,713 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4112,545,917 - 113,335,865 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4117,972,564 - 118,762,696 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04113,747,704 - 114,537,853 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04112,367,912 - 113,158,041 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.04110,699,577 - 111,497,643 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4110,699,557 - 111,497,643 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04175,389,206 - 176,188,408 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44114,142,055 - 114,940,958 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera4101,556,445 - 102,345,352 (+)NCBICelera
Cytogenetic Map4q34NCBI
Lrrtm4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554248,606,089 - 9,276,104 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554248,606,660 - 9,277,125 (+)NCBIChiLan1.0ChiLan1.0
LRRTM4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21248,830,912 - 49,617,454 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12A48,833,672 - 48,846,398 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02A76,830,224 - 77,616,298 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12A78,333,473 - 79,183,332 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A79,123,161 - 79,183,506 (-)Ensemblpanpan1.1panPan2
LRRTM4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11746,091,140 - 46,797,107 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1746,090,978 - 46,796,020 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1745,736,852 - 46,442,691 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01746,911,990 - 47,620,541 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1746,912,071 - 47,618,737 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11745,978,590 - 46,683,825 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01746,025,196 - 46,733,195 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01746,534,851 - 47,241,087 (+)NCBIUU_Cfam_GSD_1.0
LRRTM4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl366,128,689 - 66,884,740 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1366,128,650 - 66,884,916 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2369,438,923 - 70,171,188 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LRRTM4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11429,751,187 - 30,505,542 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604581,724,165 - 82,502,177 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lrrtm4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474925,669,348 - 26,444,401 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474925,669,342 - 26,445,401 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSSTOT00000001711   ⟹   ENSSTOP00000018354
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049365562,761,351 - 3,493,757 (-)Ensembl
RefSeq Acc Id: ENSSTOT00000033272   ⟹   ENSSTOP00000025422
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049365563,489,211 - 3,494,059 (-)Ensembl
RefSeq Acc Id: ENSSTOT00000041020   ⟹   ENSSTOP00000025577
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049365563,489,211 - 3,494,010 (-)Ensembl
RefSeq Acc Id: XM_021729160   ⟹   XP_021584835
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_0244062927,243,845 - 7,977,608 (+)NCBI
SpeTri2.0NW_0049365562,760,294 - 3,493,517 (-)NCBI
Sequence:
RefSeq Acc Id: XM_040271212   ⟹   XP_040127146
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_0244062927,243,844 - 7,977,608 (+)NCBI
RefSeq Acc Id: XM_040271214   ⟹   XP_040127148
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_0244062927,243,844 - 7,977,608 (+)NCBI
RefSeq Acc Id: XM_040271215   ⟹   XP_040127149
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_0244062927,243,844 - 7,313,788 (+)NCBI
RefSeq Acc Id: XM_040271216   ⟹   XP_040127150
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_0244062927,243,844 - 7,976,446 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: XP_021584835   ⟸   XM_021729160
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_040127148   ⟸   XM_040271214
- Peptide Label: isoform X2
RefSeq Acc Id: XP_040127146   ⟸   XM_040271212
- Peptide Label: isoform X1
- UniProtKB: I3N1V8 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_040127150   ⟸   XM_040271216
- Peptide Label: isoform X4
- UniProtKB: A0A287CVT9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_040127149   ⟸   XM_040271215
- Peptide Label: isoform X3
RefSeq Acc Id: ENSSTOP00000025422   ⟸   ENSSTOT00000033272
RefSeq Acc Id: ENSSTOP00000025577   ⟸   ENSSTOT00000041020
RefSeq Acc Id: ENSSTOP00000018354   ⟸   ENSSTOT00000001711


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000001717 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000001711.3 UniProtKB/TrEMBL
  ENSSTOT00000033272.1 UniProtKB/TrEMBL
  ENSSTOT00000041020.1 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 Lrrtm4 ENTREZGENE
PANTHER LEUCINE-RICH REPEAT TRANSMEMBRANE NEURONAL PROTEIN 4 UniProtKB/TrEMBL
  SLIT RELATED LEUCINE-RICH REPEAT NEURONAL PROTEIN UniProtKB/TrEMBL
Pfam LRR_8 UniProtKB/TrEMBL
PRINTS LEURICHRPT UniProtKB/TrEMBL
PROSITE LRR UniProtKB/TrEMBL
SMART LRR_TYP UniProtKB/TrEMBL
Superfamily-SCOP L domain-like UniProtKB/TrEMBL
UniProt A0A287CVT9 ENTREZGENE, UniProtKB/TrEMBL
  A0A287CW98_ICTTR UniProtKB/TrEMBL
  I3N1V8 ENTREZGENE, UniProtKB/TrEMBL