Lrit1 (leucine rich repeat, Ig-like and transmembrane domains 1) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Lrit1 (leucine rich repeat, Ig-like and transmembrane domains 1) Chinchilla lanigera
Analyze
Symbol: Lrit1
Name: leucine rich repeat, Ig-like and transmembrane domains 1
RGD ID: 8929193
Description: FOUND IN endoplasmic reticulum membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: leucine-rich repeat, immunoglobulin-like and transmembrane domains 1; leucine-rich repeat, immunoglobulin-like domain and transmembrane domain-containing protein 1
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555103,739,797 - 3,750,698 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555103,739,957 - 3,802,081 (-)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Lrit1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555103,739,797 - 3,750,698 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555103,739,957 - 3,802,081 (-)NCBIChiLan1.0ChiLan1.0
LRIT1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381084,231,520 - 84,241,546 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1084,231,520 - 84,241,546 (-)EnsemblGRCh38hg38GRCh38
GRCh371085,991,276 - 86,001,302 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361085,981,256 - 85,991,197 (-)NCBINCBI36Build 36hg18NCBI36
Build 341085,981,457 - 85,991,197NCBI
Celera1079,986,785 - 79,996,866 (-)NCBICelera
Cytogenetic Map10q23.1NCBI
HuRef1079,836,755 - 79,846,698 (-)NCBIHuRef
CHM1_11086,273,043 - 86,282,969 (-)NCBICHM1_1
T2T-CHM13v2.01085,110,046 - 85,120,066 (-)NCBIT2T-CHM13v2.0
Lrit1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391436,764,432 - 36,786,895 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1436,776,787 - 36,786,903 (+)EnsemblGRCm39 Ensembl
GRCm381437,042,475 - 37,064,938 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1437,054,830 - 37,064,946 (+)EnsemblGRCm38mm10GRCm38
MGSCv371437,868,016 - 37,878,124 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361435,963,516 - 35,976,179 (+)NCBIMGSCv36mm8
Celera1433,266,029 - 33,275,999 (+)NCBICelera
Cytogenetic Map14BNCBI
cM Map1421.29NCBI
Lrit1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81612,842,339 - 12,850,266 (+)NCBIGRCr8
mRatBN7.21612,822,076 - 12,830,003 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1612,822,076 - 12,831,772 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1612,766,412 - 12,774,313 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01613,911,139 - 13,919,040 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01612,758,844 - 12,766,783 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01614,306,804 - 14,314,731 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1614,306,804 - 14,316,500 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01614,209,199 - 14,217,177 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41613,262,817 - 13,270,744 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11613,262,814 - 13,272,509 (+)NCBI
Celera1613,080,281 - 13,088,209 (+)NCBICelera
Cytogenetic Map16p14NCBI
LRIT1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2896,210,928 - 96,223,519 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11096,216,248 - 96,228,839 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01080,646,883 - 80,653,726 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11084,216,837 - 84,226,933 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1084,215,512 - 84,227,071 (-)Ensemblpanpan1.1panPan2
LRIT1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1432,472,657 - 32,486,585 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl432,474,516 - 32,477,834 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha432,458,045 - 32,470,964 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0432,788,224 - 32,801,156 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl432,790,088 - 32,801,156 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1432,650,794 - 32,663,812 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0432,843,074 - 32,855,960 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0433,339,695 - 33,352,624 (-)NCBIUU_Cfam_GSD_1.0
Lrit1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721346,235,619 - 46,245,839 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936767843,971 - 853,419 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936767843,608 - 853,354 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LRIT1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1485,471,382 - 85,481,859 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11485,468,782 - 85,481,794 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21492,273,972 - 92,282,764 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LRIT1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1947,588,363 - 47,598,850 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl947,588,923 - 47,598,447 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660487,765,497 - 7,775,529 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lrit1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248412,790,326 - 2,799,402 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248412,790,299 - 2,799,447 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSCLAT00000000325   ⟹   ENSCLAP00000000297
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049555103,739,797 - 3,750,698 (-)Ensembl
RefSeq Acc Id: XM_005407886   ⟹   XP_005407943
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049555103,739,957 - 3,750,512 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005407887   ⟹   XP_005407944
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049555103,739,957 - 3,802,081 (-)NCBI
Sequence:
RefSeq Acc Id: XR_001231669
Type: NON-CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049555103,800,084 - 3,802,081 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005407943 (Get FASTA)   NCBI Sequence Viewer  
  XP_005407944 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000000297
  ENSCLAP00000000297.1
Reference Protein Sequences
RefSeq Acc Id: XP_005407944   ⟸   XM_005407887
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_005407943   ⟸   XM_005407886
- Peptide Label: isoform X1
- UniProtKB: A0A8C2YI38 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCLAP00000000297   ⟸   ENSCLAT00000000325
Protein Domains
Fibronectin type-III   Ig-like


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000000263 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000000325 ENTREZGENE
  ENSCLAT00000000325.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
  3.80.10.10 UniProtKB/TrEMBL
InterPro Cys-rich_flank_reg_C UniProtKB/TrEMBL
  FN3_dom UniProtKB/TrEMBL
  FN3_sf UniProtKB/TrEMBL
  Ig-like_dom UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  Ig_sub UniProtKB/TrEMBL
  Ig_sub2 UniProtKB/TrEMBL
  Leu-rich_rpt UniProtKB/TrEMBL
  Leu-rich_rpt_typical-subtyp UniProtKB/TrEMBL
  LRR_dom_sf UniProtKB/TrEMBL
  LRRNT UniProtKB/TrEMBL
NCBI Gene Lrit1 ENTREZGENE
PANTHER LEUCINE-RICH REPEAT, IMMUNOGLOBULIN-LIKE DOMAIN AND TRANSMEMBRANE DOMAIN-CONTAINING PROTEIN 1 UniProtKB/TrEMBL
  SYNAPTIC ADHESION-LIKE MOLECULE SALM UniProtKB/TrEMBL
Pfam fn3 UniProtKB/TrEMBL
  Ig_3 UniProtKB/TrEMBL
  LRR_8 UniProtKB/TrEMBL
PROSITE FN3 UniProtKB/TrEMBL
  IG_LIKE UniProtKB/TrEMBL
  LRR UniProtKB/TrEMBL
SMART IGc2 UniProtKB/TrEMBL
  LRR_TYP UniProtKB/TrEMBL
  LRRCT UniProtKB/TrEMBL
  LRRNT UniProtKB/TrEMBL
  SM00409 UniProtKB/TrEMBL
Superfamily-SCOP L domain-like UniProtKB/TrEMBL
  SSF48726 UniProtKB/TrEMBL
  SSF49265 UniProtKB/TrEMBL
UniProt A0A8C2YI38 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-08-03 Lrit1  leucine rich repeat, Ig-like and transmembrane domains 1    leucine-rich repeat, immunoglobulin-like and transmembrane domains 1  Symbol and/or name change 5135510 APPROVED