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LRCH4 leucine rich repeats and calponin homology domain containing 4 [ Homo sapiens (human) ]

Gene ID: 4034, updated on 2-Nov-2024

Summary

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Official Symbol
LRCH4provided by HGNC
Official Full Name
leucine rich repeats and calponin homology domain containing 4provided by HGNC
Primary source
HGNC:HGNC:6691
See related
Ensembl:ENSG00000077454 MIM:620165; AllianceGenome:HGNC:6691
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
LRN; LRRN1; LRRN4; PP14183
Summary
This gene encodes a protein that contains leucine-rich repeats (LRR) at its amino terminus and that is known to be involved in ligand binding. The carboxyl terminus may act as a membrane anchor. Identified structural elements suggest that the encoded protein resembles a receptor. [provided by RefSeq, Jul 2008]
Expression
Broad expression in testis (RPKM 33.5), spleen (RPKM 31.2) and 25 other tissues See more
Orthologs
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Genomic context

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See LRCH4 in Genome Data Viewer
Location:
7q22.1
Exon count:
18
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (100574011..100586129, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (101814094..101826212, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (100171634..100183752, complement)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18444 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:100168785-100169455 Neighboring gene insulin receptor substrate 3, pseudogene Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:100172387-100172941 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:100172942-100173495 Neighboring gene Sin3A associated protein 25 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:100181227-100181915 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:100182061-100182574 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:100182575-100183088 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18445 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18446 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18447 Neighboring gene F-box protein 24 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:100187581-100188381 Neighboring gene PCOLCE antisense RNA 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:100201095-100201887 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18448 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18449 Neighboring gene procollagen C-endopeptidase enhancer Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26375 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26376

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Leucine-rich repeats and calponin homology containing 4 (Lrch4) regulates the innate immune response. Aloor JJ, et al. J Biol Chem, 2019 Feb 8. PMID 30523158, Free PMC Article
  2. Impact of Escherichia coli K12 and O18:K1 on human platelets: Differential effects on platelet activation, RNAs and proteins. Fejes AV, et al. Sci Rep, 2018 Nov 1. PMID 30385858, Free PMC Article
  3. LRCH proteins: a novel family of cytoskeletal regulators. Foussard H, et al. PLoS One, 2010 Aug 18. PMID 20805893, Free PMC Article
  4. RBBP6 interacts with multifunctional protein YB-1 through its RING finger domain, leading to ubiquitination and proteosomal degradation of YB-1. Chibi M, et al. J Mol Biol, 2008 Dec 26. PMID 18851979
  5. Large-scale sequencing of two regions in human chromosome 7q22: analysis of 650 kb of genomic sequence around the EPO and CUTL1 loci reveals 17 genes. Glöckner G, et al. Genome Res, 1998 Oct. PMID 9799793, Free PMC Article

See all (36) citations in PubMed

GeneRIFs: Gene References Into Functions

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ40101, FLJ46315

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in membrane raft assembly ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in nervous system development TAS
Traceable Author Statement
more info
 PubMed 
involved_in positive regulation of toll-like receptor signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
is_active_in PML body IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in PML body IDA
Inferred from Direct Assay
more info
  
located_in plasma membrane ISS
Inferred from Sequence or Structural Similarity
more info
  

General protein information

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Preferred Names
leucine-rich repeat and calponin homology domain-containing protein 4
Names
leucine rich repeat neuronal 4
leucine-rich neuronal protein
leucine-rich repeats and calponin homology (CH) domain containing 4

NCBI Reference Sequences (RefSeq)

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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_001289934.2 → NP_001276863.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform 2

    See identical proteins and their annotated locations for NP_001276863.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate splice site in the 3' coding region compared to variant 1. The resulting protein (isoform 2) is shorter and has a distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AI491709, BC007634, BC018529, DC397219, DR422652
    Consensus CDS
    CCDS94156.1
    UniProtKB/TrEMBL
    H7C5D9
    Related
    ENSP00000419674.2, ENST00000485554.6
    Conserved Domains (5) summary
    cd00116
    Location:103 → 245
    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 ...
    sd00033
    Location:46 → 69
    LRR_RI; leucine-rich repeat [structural motif]
    pfam00307
    Location:537 → 630
    CH; Calponin homology (CH) domain
    pfam12799
    Location:92 → 131
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:138 → 194
    LRR_8; Leucine rich repeat

  2. NM_002319.5 → NP_002310.2  leucine-rich repeat and calponin homology domain-containing protein 4 isoform 1

    See identical proteins and their annotated locations for NP_002310.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer protein (isoform 1).
    Source sequence(s)
    AI491709, BC007634, BC018529, DC397219, DR422652
    Consensus CDS
    CCDS34706.1
    UniProtKB/Swiss-Prot
    A4D2D5, O75427, Q8WV85, Q96ID0
    Related
    ENSP00000309689.6, ENST00000310300.11
    Conserved Domains (5) summary
    cd00116
    Location:103 → 245
    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 ...
    sd00033
    Location:46 → 69
    LRR_RI; leucine-rich repeat [structural motif]
    pfam00307
    Location:537 → 627
    CH; Calponin homology (CH) domain
    pfam12799
    Location:92 → 131
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:138 → 194
    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_000007.14 Reference GRCh38.p14 Primary Assembly

    Range
    100574011..100586129 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047420389.1 → XP_047276345.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X11

  2. XM_047420384.1 → XP_047276340.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X7

  3. XM_047420390.1 → XP_047276346.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X12

  4. XM_047420388.1 → XP_047276344.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X10

  5. XM_047420387.1 → XP_047276343.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X9

  6. XM_047420383.1 → XP_047276339.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X6

  7. XM_047420378.1 → XP_047276334.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X1

  8. XM_047420379.1 → XP_047276335.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X2

  9. XM_047420381.1 → XP_047276337.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X4

  10. XM_047420385.1 → XP_047276341.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X8

  11. XM_047420380.1 → XP_047276336.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X3

  12. XM_047420382.1 → XP_047276338.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X5

  13. XM_047420395.1 → XP_047276351.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X16

  14. XM_047420392.1 → XP_047276348.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X14

  15. XM_047420397.1 → XP_047276353.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X17

  16. XM_047420391.1 → XP_047276347.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X13

  17. XM_047420398.1 → XP_047276354.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X17

  18. XM_047420394.1 → XP_047276350.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X15

  19. XM_047420396.1 → XP_047276352.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X17

  20. XM_047420393.1 → XP_047276349.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X15

RNA

  1. XR_007060035.1 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060931.1 Alternate T2T-CHM13v2.0

    Range
    101814094..101826212 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054358242.1 → XP_054214217.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X11

  2. XM_054358237.1 → XP_054214212.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X7

  3. XM_054358243.1 → XP_054214218.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X12

  4. XM_054358241.1 → XP_054214216.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X10

  5. XM_054358240.1 → XP_054214215.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X9

  6. XM_054358236.1 → XP_054214211.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X6

  7. XM_054358231.1 → XP_054214206.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X1

  8. XM_054358238.1 → XP_054214213.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X18

  9. XM_054358232.1 → XP_054214207.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X2

  10. XM_054358234.1 → XP_054214209.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X4

  11. XM_054358239.1 → XP_054214214.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X8

  12. XM_054358233.1 → XP_054214208.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X3

  13. XM_054358235.1 → XP_054214210.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X5

  14. XM_054358248.1 → XP_054214223.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X16

  15. XM_054358245.1 → XP_054214220.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X14

  16. XM_054358250.1 → XP_054214225.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X17

    UniProtKB/TrEMBL
    B4DYF8

  17. XM_054358244.1 → XP_054214219.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X13

  18. XM_054358251.1 → XP_054214226.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X17

    UniProtKB/TrEMBL
    B4DYF8

  19. XM_054358247.1 → XP_054214222.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X15

  20. XM_054358249.1 → XP_054214224.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X17

    UniProtKB/TrEMBL
    B4DYF8

  21. XM_054358246.1 → XP_054214221.1  leucine-rich repeat and calponin homology domain-containing protein 4 isoform X15

RNA

  1. XR_008487616.1 RNA Sequence

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
O75427.2 GenPept UniProtKB/Swiss-Prot:O75427

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