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    LRIG1 leucine rich repeats and immunoglobulin like domains 1 [ Homo sapiens (human) ]

    Gene ID: 26018, updated on 10-Dec-2024

    Summary

    Official Symbol
    LRIG1provided by HGNC
    Official Full Name
    leucine rich repeats and immunoglobulin like domains 1provided by HGNC
    Primary source
    HGNC:HGNC:17360
    See related
    Ensembl:ENSG00000144749 MIM:608868; AllianceGenome:HGNC:17360
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    LIG1; LIG-1
    Summary
    Predicted to act upstream of or within several processes, including innervation; otolith morphogenesis; and sensory perception of sound. Predicted to be located in plasma membrane. Predicted to be active in extracellular matrix and extracellular space. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in brain (RPKM 61.1), fat (RPKM 28.0) and 23 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See LRIG1 in Genome Data Viewer
    Location:
    3p14.1
    Exon count:
    23
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (66378797..66501121, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (66423367..66545661, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (66429221..66551545, complement)

    Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene solute carrier family 25 member 26 Neighboring gene RNA, 7SL, cytoplasmic 482, pseudogene Neighboring gene developmental pluripotency associated 4 pseudogene 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:66433119-66433620 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:66433621-66434120 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20039 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20040 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20041 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20042 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20043 Neighboring gene NANOG hESC enhancer GRCh37_chr3:66472381-66472906 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:66486139-66486729 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:66486730-66487319 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:66491627-66492374 Neighboring gene HNF4 motif-containing MPRA enhancer 188 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14504 Neighboring gene Sharpr-MPRA regulatory region 8313 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:66550542-66551042 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:66551043-66551543 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr3:66582385-66583210 Neighboring gene Sharpr-MPRA regulatory region 1089 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr3:66604132-66605331 Neighboring gene uncharacterized LOC105377141 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr3:66622461-66623375 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr3:66623376-66624289 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:66663707-66663920 Neighboring gene TCEAL8 pseudogene 1

    Genomic regions, transcripts, and products

    Expression

    • Project title: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    BioGRID CRISPR Screen Phenotypes (18 hits/1256 screens)

    EBI GWAS Catalog

    Description
    Common variants in 22 loci are associated with QRS duration and cardiac ventricular conduction.
    EBI GWAS Catalog
    Genome wide association study (GWAS) of Chagas cardiomyopathy in Trypanosoma cruzi seropositive subjects.
    EBI GWAS Catalog
    Genome-wide association study of chemotherapeutic agent-induced severe neutropenia/leucopenia for patients in Biobank Japan.
    EBI GWAS Catalog
    Genome-wide association study of peripheral neuropathy with D-drug-containing regimens in AIDS Clinical Trials Group protocol 384.
    EBI GWAS Catalog
    Meta-analysis identifies multiple loci associated with kidney function-related traits in east Asian populations.
    EBI GWAS Catalog
    Meta-analysis of genome-wide association studies from the CHARGE consortium identifies common variants associated with carotid intima media thickness and plaque.
    EBI GWAS Catalog

    Pathways from PubChem

    Interactions

    General gene information

    Clone Names

    • DKFZp586O1624

    Gene Ontology Provided by GOA

    Process Evidence Code Pubs
    involved_in hair cycle process  
    involved_in innervation  
    involved_in otolith morphogenesis  
    involved_in sensory perception of sound  
    Component Evidence Code Pubs
    is_active_in extracellular matrix  
    is_active_in extracellular space  
    located_in plasma membrane  

    General protein information

    Preferred Names
    leucine-rich repeats and immunoglobulin-like domains protein 1
    Names
    leucine-rich repeat protein LRIG1
    ortholog of mouse integral membrane glycoprotein LIG-1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001377344.1 → NP_001364273.1  leucine-rich repeats and immunoglobulin-like domains protein 1 isoform 2 precursor

      Status: VALIDATED

      Source sequence(s)
      AC092034, AC099665, AC126122
      UniProtKB/TrEMBL
      Q5XWD3
      Conserved Domains (9) summary
      smart00082
      Location:417 → 465
      LRRCT; Leucine rich repeat C-terminal domain
      COG4886
      Location:67 → 303
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:116 → 139
      LRR_RI; leucine-rich repeat [structural motif]
      pfam07679
      Location:668 → 755
      I-set; Immunoglobulin I-set domain
      pfam13855
      Location:358 → 417
      LRR_8; Leucine rich repeat
      pfam13927
      Location:469 → 556
      Ig_3; Immunoglobulin domain
      cd00096
      Location:685 → 689
      Ig; Ig strand B [structural motif]
      cd05763
      Location:575 → 665
      IgI_LRIG1-like; Immunoglobulin (Ig)-like ectodomain of the LRIG1 (Leucine-rich Repeats And Immunoglobulin-like Domains Protein 1) and similar proteins; member of the I-set of IgSF domains
      cd21340
      Location:187 → 374
      PPP1R42; protein phosphatase 1 regulatory subunit 42
    2. NM_001377345.1 → NP_001364274.1  leucine-rich repeats and immunoglobulin-like domains protein 1 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC092034, AC099665, AC126122
      Conserved Domains (7) summary
      smart00082
      Location:182 → 230
      LRRCT; Leucine rich repeat C-terminal domain
      sd00033
      Location:3 → 24
      LRR_RI; leucine-rich repeat [structural motif]
      pfam07679
      Location:433 → 520
      I-set; Immunoglobulin I-set domain
      pfam13855
      Location:80 → 134
      LRR_8; Leucine rich repeat
      pfam13927
      Location:234 → 321
      Ig_3; Immunoglobulin domain
      cd00096
      Location:450 → 454
      Ig; Ig strand B [structural motif]
      cd05763
      Location:340 → 430
      IgI_LRIG1-like; Immunoglobulin (Ig)-like ectodomain of the LRIG1 (Leucine-rich Repeats And Immunoglobulin-like Domains Protein 1) and similar proteins; member of the I-set of IgSF domains
    3. NM_001377346.1 → NP_001364275.1  leucine-rich repeats and immunoglobulin-like domains protein 1 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC092034, AC099665, AC126122
      Conserved Domains (7) summary
      smart00082
      Location:182 → 230
      LRRCT; Leucine rich repeat C-terminal domain
      sd00033
      Location:3 → 24
      LRR_RI; leucine-rich repeat [structural motif]
      pfam07679
      Location:433 → 520
      I-set; Immunoglobulin I-set domain
      pfam13855
      Location:80 → 134
      LRR_8; Leucine rich repeat
      pfam13927
      Location:234 → 321
      Ig_3; Immunoglobulin domain
      cd00096
      Location:450 → 454
      Ig; Ig strand B [structural motif]
      cd05763
      Location:340 → 430
      IgI_LRIG1-like; Immunoglobulin (Ig)-like ectodomain of the LRIG1 (Leucine-rich Repeats And Immunoglobulin-like Domains Protein 1) and similar proteins; member of the I-set of IgSF domains
    4. NM_001377347.1 → NP_001364276.1  leucine-rich repeats and immunoglobulin-like domains protein 1 isoform 4

      Status: VALIDATED

      Source sequence(s)
      AC092034, AC099665, AC126122
      Related
      ENST00000496559.6
      Conserved Domains (8) summary
      smart00082
      Location:108 → 156
      LRRCT; Leucine rich repeat C-terminal domain
      sd00031
      Location:50 → 73
      LRR_1; leucine-rich repeat [structural motif]
      sd00033
      Location:126 → 153
      LRR_RI; leucine-rich repeat [structural motif]
      pfam07679
      Location:359 → 446
      I-set; Immunoglobulin I-set domain
      pfam13855
      Location:49 → 108
      LRR_8; Leucine rich repeat
      pfam13927
      Location:160 → 247
      Ig_3; Immunoglobulin domain
      cd00096
      Location:376 → 380
      Ig; Ig strand B [structural motif]
      cd05763
      Location:266 → 356
      IgI_LRIG1-like; Immunoglobulin (Ig)-like ectodomain of the LRIG1 (Leucine-rich Repeats And Immunoglobulin-like Domains Protein 1) and similar proteins; member of the I-set of IgSF domains
    5. NM_001377348.1 → NP_001364277.1  leucine-rich repeats and immunoglobulin-like domains protein 1 isoform 5

      Status: VALIDATED

      Source sequence(s)
      AC092034, AC099665, AC126122
      Conserved Domains (8) summary
      smart00082
      Location:99 → 147
      LRRCT; Leucine rich repeat C-terminal domain
      sd00031
      Location:41 → 64
      LRR_1; leucine-rich repeat [structural motif]
      sd00033
      Location:117 → 144
      LRR_RI; leucine-rich repeat [structural motif]
      pfam07679
      Location:350 → 437
      I-set; Immunoglobulin I-set domain
      pfam13855
      Location:40 → 99
      LRR_8; Leucine rich repeat
      pfam13927
      Location:151 → 238
      Ig_3; Immunoglobulin domain
      cd00096
      Location:367 → 371
      Ig; Ig strand B [structural motif]
      cd05763
      Location:257 → 347
      IgI_LRIG1-like; Immunoglobulin (Ig)-like ectodomain of the LRIG1 (Leucine-rich Repeats And Immunoglobulin-like Domains Protein 1) and similar proteins; member of the I-set of IgSF domains
    6. NM_001377349.1 → NP_001364278.1  leucine-rich repeats and immunoglobulin-like domains protein 1 isoform 6

      Status: VALIDATED

      Source sequence(s)
      AC092034, AC099665, AC126122
      Conserved Domains (5) summary
      smart00082
      Location:14 → 62
      LRRCT; Leucine rich repeat C-terminal domain
      pfam07679
      Location:265 → 352
      I-set; Immunoglobulin I-set domain
      pfam13927
      Location:66 → 153
      Ig_3; Immunoglobulin domain
      cd00096
      Location:273 → 276
      Ig; Ig strand A' [structural motif]
      cd05763
      Location:172 → 262
      IgI_LRIG1-like; Immunoglobulin (Ig)-like ectodomain of the LRIG1 (Leucine-rich Repeats And Immunoglobulin-like Domains Protein 1) and similar proteins; member of the I-set of IgSF domains
    7. NM_015541.3 → NP_056356.2  leucine-rich repeats and immunoglobulin-like domains protein 1 isoform 1 precursor

      See identical proteins and their annotated locations for NP_056356.2

      Status: VALIDATED

      Source sequence(s)
      AB050468, AC099665, AF381545, BC014276
      Consensus CDS
      CCDS33783.1
      UniProtKB/Swiss-Prot
      Q6IQ51, Q96CF9, Q96JA1, Q9BYB8, Q9UFI4
      UniProtKB/TrEMBL
      Q5XWD3
      Related
      ENSP00000273261.3, ENST00000273261.8
      Conserved Domains (9) summary
      cd00096
      Location:512 → 586
      Ig; Immunoglobulin domain
      cd05763
      Location:616 → 690
      Ig_1; Subgroup of the immunoglobulin (Ig) superfamily
      smart00408
      Location:707 → 770
      IGc2; Immunoglobulin C-2 Type
      smart00082
      Location:442 → 490
      LRRCT; Leucine rich repeat C-terminal domain
      cd00116
      Location:131 → 416
      LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
      pfam07679
      Location:599 → 689
      I-set; Immunoglobulin I-set domain
      sd00031
      Location:117 → 140
      LRR_1; leucine-rich repeat [structural motif]
      sd00033
      Location:141 → 164
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:211 → 271
      LRR_8; Leucine rich repeat

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000003.12 Reference GRCh38.p14 Primary Assembly

      Range
      66378797..66501121 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047447939.1 → XP_047303895.1  leucine-rich repeats and immunoglobulin-like domains protein 1 isoform X2

      UniProtKB/TrEMBL
      Q5XWD3
    2. XM_011533578.3 → XP_011531880.1  leucine-rich repeats and immunoglobulin-like domains protein 1 isoform X1

      UniProtKB/TrEMBL
      Q5XWD3
      Conserved Domains (9) summary
      cd00096
      Location:464 → 538
      Ig; Immunoglobulin domain
      cd05763
      Location:568 → 642
      Ig_1; Subgroup of the immunoglobulin (Ig) superfamily
      smart00408
      Location:659 → 722
      IGc2; Immunoglobulin C-2 Type
      smart00082
      Location:394 → 442
      LRRCT; Leucine rich repeat C-terminal domain
      cd00116
      Location:73 → 320
      LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
      pfam07679
      Location:551 → 641
      I-set; Immunoglobulin I-set domain
      sd00033
      Location:141 → 164
      LRR_RI; leucine-rich repeat [structural motif]
      pfam12799
      Location:360 → 391
      LRR_4; Leucine Rich repeats (2 copies)
      pfam13855
      Location:211 → 271
      LRR_8; Leucine rich repeat
    3. XM_017006135.2 → XP_016861624.2  leucine-rich repeats and immunoglobulin-like domains protein 1 isoform X3

    Reference GRCh38.p14 PATCHES

    Genomic

    1. NW_012132916.1 Reference GRCh38.p14 PATCHES

      Range
      355693..371107 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060927.1 Alternate T2T-CHM13v2.0

      Range
      66423367..66545661 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054346123.1 → XP_054202098.1  leucine-rich repeats and immunoglobulin-like domains protein 1 isoform X2

      UniProtKB/TrEMBL
      Q5XWD3
    2. XM_054346122.1 → XP_054202097.1  leucine-rich repeats and immunoglobulin-like domains protein 1 isoform X1

      UniProtKB/TrEMBL
      Q5XWD3
    3. XM_054346124.1 → XP_054202099.1  leucine-rich repeats and immunoglobulin-like domains protein 1 isoform X3

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