Human Gene LRIG1 (ENST00000273261.8) from GENCODE V44
  Description: Homo sapiens leucine rich repeats and immunoglobulin like domains 1 (LRIG1), transcript variant 1, mRNA. (from RefSeq NM_015541)
Gencode Transcript: ENST00000273261.8
Gencode Gene: ENSG00000144749.14
Transcript (Including UTRs)
   Position: hg38 chr3:66,378,797-66,501,022 Size: 122,226 Total Exon Count: 19 Strand: -
Coding Region
   Position: hg38 chr3:66,380,263-66,500,407 Size: 120,145 Coding Exon Count: 19 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr3:66,378,797-66,501,022)mRNA (may differ from genome)Protein (1093 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDLynxMalacardsMGIneXtProt
OMIMPubMedReactomeUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: LRIG1_HUMAN
DESCRIPTION: RecName: Full=Leucine-rich repeats and immunoglobulin-like domains protein 1; Short=LIG-1; Flags: Precursor;
FUNCTION: Acts as a feedback negative regulator of signaling by receptor tyrosine kinases, through a mechanism that involves enhancement of receptor ubiquitination and accelerated intracellular degradation.
SUBUNIT: Interacts with EGFR/ERBB1, ERBB2, ERBB3 and ERBB4.
SUBCELLULAR LOCATION: Membrane; Single-pass type I membrane protein.
TISSUE SPECIFICITY: Widely expressed.
INDUCTION: By EGF.
DOMAIN: The LRRs and the Ig-domains are each sufficient for EGFR/ERBB1 binding. This interaction is abolished only when these two domains are deleted.
SIMILARITY: Contains 3 Ig-like C2-type (immunoglobulin-like) domains.
SIMILARITY: Contains 15 LRR (leucine-rich) repeats.
SIMILARITY: Contains 1 LRRCT domain.
SIMILARITY: Contains 1 LRRNT domain.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: LRIG1
Diseases sorted by gene-association score: verrucous carcinoma (10), eccrine porocarcinoma (6)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene
  • D014635 Valproic Acid
  • D002945 Cisplatin
  • D013749 Tetrachlorodibenzodioxin
  • C029497 2,3-bis(3'-hydroxybenzyl)butyrolactone
  • C532162 2-(1H-indazol-4-yl)-6-(4-methanesulfonylpiperazin-1-ylmethyl)-4-morpholin-4-ylthieno(3,2-d)pyrimidine
  • C030370 2-methoxy-5-(2',3',4'-trimethoxyphenyl)tropone
  • C009505 4,4'-diaminodiphenylmethane
  • D015123 7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide
  • D016604 Aflatoxin B1
  • D000393 Air Pollutants
          more ... click here to view the complete list

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 26.49 RPKM in Colon - Sigmoid
Total median expression: 468.25 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -365.50615-0.594 Picture PostScript Text
3' UTR -429.801466-0.293 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR000483 - Cys-rich_flank_reg_C
IPR007110 - Ig-like
IPR013783 - Ig-like_fold
IPR013098 - Ig_I-set
IPR003599 - Ig_sub
IPR003598 - Ig_sub2
IPR001611 - Leu-rich_rpt
IPR003591 - Leu-rich_rpt_typical-subtyp
IPR000372 - LRR-contain_N

Pfam Domains:
PF07679 - Immunoglobulin I-set domain
PF01463 - Leucine rich repeat C-terminal domain

ModBase Predicted Comparative 3D Structure on Q96JA1
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGDEnsembl   
Protein SequenceProtein SequenceProtein Sequence   
AlignmentAlignmentAlignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Biological Process:
GO:0007605 sensory perception of sound
GO:0022405 hair cycle process
GO:0032474 otolith morphogenesis
GO:0060384 innervation

Cellular Component:
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  LF207306 - JP 2014500723-A/14809: Polycomb-Associated Non-Coding RNAs.
MA442883 - JP 2018138019-A/14809: Polycomb-Associated Non-Coding RNAs.
AF381545 - Homo sapiens membrane glycoprotein LRIG1 (LRIG1) mRNA, complete cds.
AY730707 - Homo sapiens leucine-rich repeat protein LRIG1 (LRIG1) mRNA, complete cds, alternatively spliced.
AB050468 - Homo sapiens mRNA for membrane glycoprotein LIG-1, complete cds.
BC071561 - Homo sapiens leucine-rich repeats and immunoglobulin-like domains 1, mRNA (cDNA clone MGC:87003 IMAGE:30340674), complete cds.
BC140907 - Homo sapiens leucine-rich repeats and immunoglobulin-like domains 1, mRNA (cDNA clone MGC:176584 IMAGE:9056719), complete cds.
AK314103 - Homo sapiens cDNA, FLJ94790.
KJ902405 - Synthetic construct Homo sapiens clone ccsbBroadEn_11799 LRIG1 gene, encodes complete protein.
BC014276 - Homo sapiens leucine-rich repeats and immunoglobulin-like domains 1, mRNA (cDNA clone IMAGE:3688299), partial cds.
AL117666 - Homo sapiens mRNA; cDNA DKFZp586O1624 (from clone DKFZp586O1624); partial cds.
AK126745 - Homo sapiens cDNA FLJ44791 fis, clone BRACE3039358, highly similar to Leucine-rich repeats and immunoglobulin-like domains protein 1 precursor.
JD306147 - Sequence 287171 from Patent EP1572962.
LF364412 - JP 2014500723-A/171915: Polycomb-Associated Non-Coding RNAs.
MA599989 - JP 2018138019-A/171915: Polycomb-Associated Non-Coding RNAs.
JD292627 - Sequence 273651 from Patent EP1572962.
JD060310 - Sequence 41334 from Patent EP1572962.
JD539049 - Sequence 520073 from Patent EP1572962.
JD098133 - Sequence 79157 from Patent EP1572962.
JD451018 - Sequence 432042 from Patent EP1572962.
JD339137 - Sequence 320161 from Patent EP1572962.
JD074016 - Sequence 55040 from Patent EP1572962.
JD289736 - Sequence 270760 from Patent EP1572962.
JD303830 - Sequence 284854 from Patent EP1572962.
JD184669 - Sequence 165693 from Patent EP1572962.
JD507437 - Sequence 488461 from Patent EP1572962.
LF364413 - JP 2014500723-A/171916: Polycomb-Associated Non-Coding RNAs.
MA599990 - JP 2018138019-A/171916: Polycomb-Associated Non-Coding RNAs.
JD531968 - Sequence 512992 from Patent EP1572962.
JD378319 - Sequence 359343 from Patent EP1572962.
JD110345 - Sequence 91369 from Patent EP1572962.
JD195549 - Sequence 176573 from Patent EP1572962.
JD180088 - Sequence 161112 from Patent EP1572962.
JD565459 - Sequence 546483 from Patent EP1572962.
LF364414 - JP 2014500723-A/171917: Polycomb-Associated Non-Coding RNAs.
MA599991 - JP 2018138019-A/171917: Polycomb-Associated Non-Coding RNAs.
LF364415 - JP 2014500723-A/171918: Polycomb-Associated Non-Coding RNAs.
MA599992 - JP 2018138019-A/171918: Polycomb-Associated Non-Coding RNAs.
LF364416 - JP 2014500723-A/171919: Polycomb-Associated Non-Coding RNAs.
MA599993 - JP 2018138019-A/171919: Polycomb-Associated Non-Coding RNAs.
JD417562 - Sequence 398586 from Patent EP1572962.
AK294984 - Homo sapiens cDNA FLJ50761 complete cds, highly similar to Leucine-rich repeats and immunoglobulin-like domains protein 1 precursor.
LF364417 - JP 2014500723-A/171920: Polycomb-Associated Non-Coding RNAs.
MA599994 - JP 2018138019-A/171920: Polycomb-Associated Non-Coding RNAs.
LF364418 - JP 2014500723-A/171921: Polycomb-Associated Non-Coding RNAs.
MA599995 - JP 2018138019-A/171921: Polycomb-Associated Non-Coding RNAs.
LF364419 - JP 2014500723-A/171922: Polycomb-Associated Non-Coding RNAs.
MA599996 - JP 2018138019-A/171922: Polycomb-Associated Non-Coding RNAs.
LF364420 - JP 2014500723-A/171923: Polycomb-Associated Non-Coding RNAs.
MA599997 - JP 2018138019-A/171923: Polycomb-Associated Non-Coding RNAs.
LF364421 - JP 2014500723-A/171924: Polycomb-Associated Non-Coding RNAs.
MA599998 - JP 2018138019-A/171924: Polycomb-Associated Non-Coding RNAs.
LF364422 - JP 2014500723-A/171925: Polycomb-Associated Non-Coding RNAs.
MA599999 - JP 2018138019-A/171925: Polycomb-Associated Non-Coding RNAs.
LF364423 - JP 2014500723-A/171926: Polycomb-Associated Non-Coding RNAs.
MA600000 - JP 2018138019-A/171926: Polycomb-Associated Non-Coding RNAs.
LF364424 - JP 2014500723-A/171927: Polycomb-Associated Non-Coding RNAs.
MA600001 - JP 2018138019-A/171927: Polycomb-Associated Non-Coding RNAs.
LF364425 - JP 2014500723-A/171928: Polycomb-Associated Non-Coding RNAs.
MA600002 - JP 2018138019-A/171928: Polycomb-Associated Non-Coding RNAs.
LF364427 - JP 2014500723-A/171930: Polycomb-Associated Non-Coding RNAs.
MA600004 - JP 2018138019-A/171930: Polycomb-Associated Non-Coding RNAs.
LF364429 - JP 2014500723-A/171932: Polycomb-Associated Non-Coding RNAs.
MA600006 - JP 2018138019-A/171932: Polycomb-Associated Non-Coding RNAs.
LF364435 - JP 2014500723-A/171938: Polycomb-Associated Non-Coding RNAs.
MA600012 - JP 2018138019-A/171938: Polycomb-Associated Non-Coding RNAs.
LF212067 - JP 2014500723-A/19570: Polycomb-Associated Non-Coding RNAs.
MA447644 - JP 2018138019-A/19570: Polycomb-Associated Non-Coding RNAs.
JD445760 - Sequence 426784 from Patent EP1572962.
JD468646 - Sequence 449670 from Patent EP1572962.
JD368693 - Sequence 349717 from Patent EP1572962.
JD159376 - Sequence 140400 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q96JA1 (Reactome details) participates in the following event(s):

R-HSA-8875374 MET binds LRIG1
R-HSA-8875431 LRIG1 undergoes ubiquitination
R-HSA-8875443 USP8 deubiquitinates LRIG1
R-HSA-8875490 EPS15 and HGS bind ubiquitinated MET
R-HSA-6807004 Negative regulation of MET activity
R-HSA-6806834 Signaling by MET
R-HSA-9006934 Signaling by Receptor Tyrosine Kinases
R-HSA-162582 Signal Transduction

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000273261.1, ENST00000273261.2, ENST00000273261.3, ENST00000273261.4, ENST00000273261.5, ENST00000273261.6, ENST00000273261.7, LIG1, LRIG1_HUMAN, NM_015541, Q6IQ51, Q96CF9, Q96JA1, Q9BYB8, Q9UFI4, uc003dmx.1, uc003dmx.2, uc003dmx.3, uc003dmx.4, uc003dmx.5
UCSC ID: ENST00000273261.8
RefSeq Accession: NM_015541
Protein: Q96JA1 (aka LRIG1_HUMAN or LIG1_HUMAN)
CCDS: CCDS33783.1

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.