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lrig1 leucine-rich repeats and immunoglobulin-like domains 1 [ Danio rerio (zebrafish) ]

Gene ID: 560325, updated on 9-Dec-2024

Summary

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Official Symbol
lrig1provided by ZNC
Official Full Name
leucine-rich repeats and immunoglobulin-like domains 1provided by ZNC
Primary source
ZFIN:ZDB-GENE-031113-23
See related
Ensembl:ENSDARG00000075625 AllianceGenome:ZFIN:ZDB-GENE-031113-23
Gene type
protein coding
RefSeq status
MODEL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
cb994; fc26a06; wu:fc26a06
Summary
Is expressed in axis; central nervous system; notochord; pharyngeal arch 3-7 skeleton; and somite. Orthologous to human LRIG1 (leucine rich repeats and immunoglobulin like domains 1). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs
human mouse all
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Genomic context

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See lrig1 in Genome Data Viewer
Location:
chromosome: 11
Exon count:
20
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 11 NC_007122.7 (16331824..16395892, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 11 NC_007122.6 (16195141..16261257, complement)

Chromosome 11 - NC_007122.7Genomic Context describing neighboring genes Neighboring gene 5-hydroxymethylcytosine binding, ES cell specific Neighboring gene RAB7a, member RAS oncogene family Neighboring gene solute carrier family 25 member 26 Neighboring gene uncharacterized LOC137496682 Neighboring gene uncharacterized LOC137496683

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. Functional and evolutionary insights from the Ciona notochord transcriptome. Reeves WM, et al. Development, 2017 Sep 15. PMID 28928284, Free PMC Article
  2. BMP Signaling Interferes with Optic Chiasm Formation and Retinal Ganglion Cell Pathfinding in Zebrafish. Knickmeyer MD, et al. Int J Mol Sci, 2021 Apr 27. PMID 33925390, Free PMC Article
  3. Evolution of complexity in the zebrafish synapse proteome. Bayés À, et al. Nat Commun, 2017 Mar 2. PMID 28252024, Free PMC Article
  4. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
  5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

General protein information

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Preferred Names
leucine-rich repeats and immunoglobulin-like domains protein 1

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007122.7 Reference GRCz11 Primary Assembly

    Range
    16331824..16395892 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_068224309.1 → XP_068080410.1  leucine-rich repeats and immunoglobulin-like domains protein 1 isoform X2

  2. XM_683725.10 → XP_688817.4  leucine-rich repeats and immunoglobulin-like domains protein 1 isoform X1

    Related
    ENSDARP00000098283.2, ENSDART00000115085.4
    Conserved Domains (11) summary
    cd05763
    Location:607 → 681
    Ig_1; Subgroup of the immunoglobulin (Ig) superfamily
    smart00408
    Location:698 → 761
    IGc2; Immunoglobulin C-2 Type
    smart00013
    Location:31 → 63
    LRRNT; Leucine rich repeat N-terminal domain
    smart00082
    Location:433 → 481
    LRRCT; Leucine rich repeat C-terminal domain
    smart00410
    Location:492 → 586
    IG_like; Immunoglobulin like
    cd00116
    Location:77 → 334
    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:590 → 680
    I-set; Immunoglobulin I-set domain
    sd00033
    Location:132 → 155
    LRR_RI; leucine-rich repeat [structural motif]
    pfam12799
    Location:373 → 414
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:299 → 358
    LRR_8; Leucine rich repeat
    pfam13927
    Location:485 → 572
    Ig_3; Immunoglobulin domain

  3. XM_068224310.1 → XP_068080411.1  leucine-rich repeats and immunoglobulin-like domains protein 1 isoform X3

  4. XM_068224311.1 → XP_068080412.1  leucine-rich repeats and immunoglobulin-like domains protein 1 isoform X4

Reference GRCz11 ALT_DRER_TU_2

Genomic

  1. NW_018395297.1 Reference GRCz11 ALT_DRER_TU_2

    Range
    242955..257723 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_021474233.2 → XP_021329908.1  leucine-rich repeats and immunoglobulin-like domains protein 1 isoform X5

    Conserved Domains (3) summary
    cd05763
    Location:91 → 165
    Ig_1; Subgroup of the immunoglobulin (Ig) superfamily
    pfam07679
    Location:168 → 255
    I-set; Immunoglobulin I-set domain
    cl11960
    Location:5 → 70
    Ig; Immunoglobulin domain
Nucleotide Protein Strain
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