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LRCH3 leucine rich repeats and calponin homology domain containing 3 [ Homo sapiens (human) ]

Gene ID: 84859, updated on 26-Oct-2022

Summary

Official Symbol
LRCH3provided by HGNC
Official Full Name
leucine rich repeats and calponin homology domain containing 3provided by HGNC
Primary source
HGNC:HGNC:28637
See related
Ensembl:ENSG00000186001 AllianceGenome:HGNC:28637
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
Summary
Involved in septin cytoskeleton organization. Located in cytosol. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in ovary (RPKM 3.8), lymph node (RPKM 3.6) and 25 other tissues See more
Orthologs
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Genomic context

See LRCH3 in Genome Data Viewer
Location:
3q29
Exon count:
25
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (197791226..197888436)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (200523608..200620895)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (197518097..197615307)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene rubicon autophagy regulator Neighboring gene Sharpr-MPRA regulatory region 6653 Neighboring gene forty-two-three domain containing 1 Neighboring gene uncharacterized LOC124909482 Neighboring gene uncharacterized LOC105374310 Neighboring gene ribosomal protein L17 pseudogene 18 Neighboring gene NUP98-IQCG recombination region Neighboring gene RNA, U6 small nuclear 858, pseudogene Neighboring gene IQ motif containing G

Genomic regions, transcripts, and products

Expression

  • Project title: 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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC4126, FLJ20994, FLJ43245, FLJ44976

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 septin cytoskeleton organization IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
located_in cytoplasm IC
Inferred by Curator
more info
PubMed 
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in cytosol IDA
Inferred from Direct Assay
more info
 

General protein information

Preferred Names
DISP complex protein LRCH3
Names
leucine-rich repeat and calponin homology domain-containing protein 3
leucine-rich repeats and calponin homology (CH) domain containing 3

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_001363887.1NP_001350816.1  DISP complex protein LRCH3 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AC055764, AC135893, AC144530
    Consensus CDS
    CCDS87193.1
    Related
    ENSP00000394763.2, ENST00000428136.2
    Conserved Domains (3) summary
    smart00033
    Location:660762
    CH; Calponin homology domain
    COG4886
    Location:77285
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00033
    Location:6183
    LRR_RI; leucine-rich repeat [structural motif]
  2. NM_001365715.1NP_001352644.1  DISP complex protein LRCH3 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC055764, AC135893, AC144530
    Consensus CDS
    CCDS93456.1
    UniProtKB/Swiss-Prot
    Q9NT52
    Related
    ENSP00000393579.2, ENST00000425562.7
    Conserved Domains (3) summary
    smart00033
    Location:660734
    CH; Calponin homology domain
    COG4886
    Location:77285
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00033
    Location:6183
    LRR_RI; leucine-rich repeat [structural motif]
  3. NM_001365716.1NP_001352645.1  DISP complex protein LRCH3 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC055764, AC135893, AC144530
    Conserved Domains (3) summary
    smart00033
    Location:624726
    CH; Calponin homology domain
    COG4886
    Location:77285
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00033
    Location:6183
    LRR_RI; leucine-rich repeat [structural motif]
  4. NM_001365717.1NP_001352646.1  DISP complex protein LRCH3 isoform 5

    Status: VALIDATED

    Source sequence(s)
    AC055764, AC135893, AC144530
    Conserved Domains (3) summary
    smart00033
    Location:636710
    CH; Calponin homology domain
    COG4886
    Location:77285
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00033
    Location:6183
    LRR_RI; leucine-rich repeat [structural motif]
  5. NM_001365718.1NP_001352647.1  DISP complex protein LRCH3 isoform 6

    Status: VALIDATED

    Source sequence(s)
    AC055764, AC135893, AC144530
    Conserved Domains (3) summary
    smart00033
    Location:624698
    CH; Calponin homology domain
    COG4886
    Location:77285
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00033
    Location:6183
    LRR_RI; leucine-rich repeat [structural motif]
  6. NM_001365719.2NP_001352648.1  DISP complex protein LRCH3 isoform 7

    Status: VALIDATED

    Source sequence(s)
    AC055764, AC144530
    Conserved Domains (2) summary
    COG4886
    Location:77285
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00033
    Location:6183
    LRR_RI; leucine-rich repeat [structural motif]
  7. NM_032773.4NP_116162.1  DISP complex protein LRCH3 isoform 2

    See identical proteins and their annotated locations for NP_116162.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (2) has a shorter and distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AK300466, BC007504, DB454969
    Consensus CDS
    CCDS3330.1
    UniProtKB/Swiss-Prot
    Q96II8
    UniProtKB/TrEMBL
    B4DU23
    Related
    ENSP00000334375.4, ENST00000334859.8
    Conserved Domains (3) summary
    smart00033
    Location:660708
    CH; Calponin homology domain
    COG4886
    Location:77285
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00033
    Location:6183
    LRR_RI; leucine-rich repeat [structural motif]

RNA

  1. NR_158582.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC055764, AC135893, AC144530

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

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
    197791226..197888436
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005269367.4XP_005269424.1  DISP complex protein LRCH3 isoform X1

    Conserved Domains (3) summary
    smart00033
    Location:600702
    CH; Calponin homology domain
    COG4886
    Location:77285
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00033
    Location:6183
    LRR_RI; leucine-rich repeat [structural motif]
  2. XM_047449082.1XP_047305038.1  DISP complex protein LRCH3 isoform X4

  3. XM_047449081.1XP_047305037.1  DISP complex protein LRCH3 isoform X2

  4. XM_017007352.3XP_016862841.1  DISP complex protein LRCH3 isoform X3

    Conserved Domains (4) summary
    smart00033
    Location:582684
    CH; Calponin homology domain
    COG4886
    Location:77285
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00033
    Location:6183
    LRR_RI; leucine-rich repeat [structural motif]
    pfam05917
    Location:427590
    DUF874; Helicobacter pylori protein of unknown function (DUF874)
  5. XM_047449083.1XP_047305039.1  DISP complex protein LRCH3 isoform X5

  6. XM_011513242.4XP_011511544.1  DISP complex protein LRCH3 isoform X6

    Conserved Domains (2) summary
    COG4886
    Location:77285
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00033
    Location:6183
    LRR_RI; leucine-rich repeat [structural motif]
  7. XM_047449084.1XP_047305040.1  DISP complex protein LRCH3 isoform X7

RNA

  1. XR_007095758.1 RNA Sequence

  2. XR_007095759.1 RNA Sequence

  3. XR_007095760.1 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    200523608..200620895
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)