Format

Send to:

Choose Destination

LIMCH1 LIM and calponin homology domains 1 [ Homo sapiens (human) ]

Gene ID: 22998, updated on 8-May-2016
Official Symbol
LIMCH1provided by HGNC
Official Full Name
LIM and calponin homology domains 1provided by HGNC
Primary source
HGNC:HGNC:29191
See related
Ensembl:ENSG00000064042 HPRD:11125; Vega:OTTHUMG00000160575
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
LMO7B; LIMCH1A
Orthologs
Location:
4p13
Exon count:
40
Annotation release Status Assembly Chr Location
107 current GRCh38.p2 (GCF_000001405.28) 4 NC_000004.12 (41359607..41700044)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (41362802..41702061)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene UCHL1 antisense RNA 1 (head to head) Neighboring gene ubiquitin C-terminal hydrolase L1 Neighboring gene ribosomal protein L12 pseudogene 20 Neighboring gene uncharacterized LOC105374423 Neighboring gene uncharacterized LOC105374422 Neighboring gene uncharacterized LOC105374421 Neighboring gene olfactory receptor family 5 subfamily M member 14 pseudogene Neighboring gene paired like homeobox 2b

NHGRI GWAS Catalog

Description
Genome-wide meta-analysis identifies new susceptibility loci for migraine.
NHGRI GWA Catalog
GWAS of Longevity in CHARGE Consortium Confirms APOE and FOXO3 Candidacy.
NHGRI GWA Catalog
Pharmacogenetic meta-analysis of genome-wide association studies of LDL cholesterol response to statins.
NHGRI GWA Catalog
Products Interactant Other Gene Complex Source Pubs Description

Markers

Homology

Clone Names

  • MGC72127, DKFZp434I0312, DKFZp686B2470, DKFZp686G2094, DKFZp781C1754, DKFZp781I1455, DKFZp686A01247, DKFZp686G18243

Gene Ontology Provided by GOA

Function Evidence Code Pubs
actin binding IEA
Inferred from Electronic Annotation
more info
 
zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
actomyosin structure organization IEA
Inferred from Electronic Annotation
more info
 
Preferred Names
LIM and calponin homology domains-containing protein 1

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_001112717.2NP_001106188.1  LIM and calponin homology domains-containing protein 1 isoform b

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (b) has the same N- and C-termini but is shorter compared to isoform a.
    Source sequence(s)
    AB029025, AK026815, BC029735, BX537916, CR749205, CR933645
    Consensus CDS
    CCDS54763.1
    UniProtKB/Swiss-Prot
    Q9UPQ0
    Related
    ENSP00000424645, OTTHUMP00000218525, ENST00000512946, OTTHUMT00000361253
    Conserved Domains (2) summary
    cd00014
    Location:26138
    CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...
    cd08368
    Location:9871045
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  2. NM_001112718.2NP_001106189.1  LIM and calponin homology domains-containing protein 1 isoform c

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an alternate in-frame exon and uses an alternate in-frame splice site compared to variant 1. The resulting isoform (c) has the same N- and C-termini but is shorter compared to isoform a.
    Source sequence(s)
    AB029025, AK026815, BC029735, BX537916, CR749205, CR933645, CR936664
    Consensus CDS
    CCDS54764.1
    UniProtKB/Swiss-Prot
    Q9UPQ0
    Related
    ENSP00000424825, OTTHUMP00000218522, ENST00000508501, OTTHUMT00000361250
    Conserved Domains (2) summary
    cd00014
    Location:26138
    CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...
    cd08368
    Location:9861044
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  3. NM_001112719.2NP_001106190.1  LIM and calponin homology domains-containing protein 1 isoform d

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR and coding region and uses an alternate in-frame splice site compared to variant 1. The resulting isoform (d) has a shorter and distinct N-terminus and lacks a single aa in the middle compared to isoform a.
    Source sequence(s)
    AK026815, AK294774, BC029735, BX537916, CR749205, CR936661
    Consensus CDS
    CCDS47047.1
    UniProtKB/Swiss-Prot
    Q9UPQ0
    UniProtKB/TrEMBL
    B7Z2J4
    Related
    ENSP00000379840, OTTHUMP00000218618, ENST00000396595, OTTHUMT00000361478
    Conserved Domains (1) summary
    cd08368
    Location:832890
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  4. NM_001112720.2NP_001106191.1  LIM and calponin homology domains-containing protein 1 isoform e

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR and coding region, uses an alternate in-frame splice site, and lacks an alternate in-frame exon compared to variant 1. The resulting isoform (e) has a shorter and distinct N-terminus and lacks a single aa and a 12 aa segment in the middle compared to isoform a.
    Source sequence(s)
    AK026815, AK294774, BC029735, BX537916, CR749205, CR936664, DA786971
    Consensus CDS
    CCDS54765.1
    UniProtKB/Swiss-Prot
    Q9UPQ0
    UniProtKB/TrEMBL
    B7Z2J4
    Related
    ENSP00000371172, OTTHUMP00000218619, ENST00000381753, OTTHUMT00000361479
    Conserved Domains (1) summary
    cd08368
    Location:820878
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  5. NM_001289122.1NP_001276051.1  LIM and calponin homology domains-containing protein 1 isoform f

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) lacks an alternate in-frame exon in the 5' coding region, and contains an alternate in-frame exon as well as lacks an alternate in-frame exon in the 3' coding region, compared to variant 1. It encodes isoform f, which is shorter than isoform a.
    Source sequence(s)
    AB029025, AK026815, BX537916, CR749205, CR933645, CR936601, CR936658
    Consensus CDS
    CCDS75119.1
    UniProtKB/Swiss-Prot
    Q9UPQ0
    Related
    ENSP00000424437, OTTHUMP00000218527, ENST00000512820, OTTHUMT00000361255
    Conserved Domains (3) summary
    pfam06390
    Location:608813
    NESP55; Neuroendocrine-specific golgi protein P55 (NESP55)
    cd00014
    Location:26138
    CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...
    cd08368
    Location:9991057
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  6. NM_001289124.1NP_001276053.1  LIM and calponin homology domains-containing protein 1 isoform g

    Status: VALIDATED

    Description
    Transcript Variant: This variant (7) differs in the 5' UTR, contains multiple coding region differences and initiates translation at a downstream start codon, compared to variant 1. It encodes isoform g, which is shorter than isoform a.
    Source sequence(s)
    AK026815, BX537916, CR749205, CR936601, CR936610
    Consensus CDS
    CCDS75121.1
    UniProtKB/Swiss-Prot
    Q9UPQ0
    Related
    ENSP00000425222, OTTHUMP00000218523, ENST00000513024, OTTHUMT00000361251
    Conserved Domains (1) summary
    cd08368
    Location:840898
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  7. NM_014988.3NP_055803.2  LIM and calponin homology domains-containing protein 1 isoform a

    See identical proteins and their annotated locations for NP_055803.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a).
    Source sequence(s)
    AB029025, AK026815, BC029735, BX537916, CR749205, CR933645
    Consensus CDS
    CCDS33977.1
    UniProtKB/Swiss-Prot
    Q9UPQ0
    Related
    ENSP00000316891, OTTHUMP00000218521, ENST00000313860, OTTHUMT00000361249
    Conserved Domains (2) summary
    cd00014
    Location:26138
    CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...
    cd08368
    Location:10131071
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 107 details...

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

Reference GRCh38.p2 Primary Assembly

Genomic

  1. NC_000004.12 Reference GRCh38.p2 Primary Assembly

    Range
    41359607..41700044
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011513642.1XP_011511944.1  

    Conserved Domains (2) summary
    cd00014
    Location:26138
    CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...
    cd08368
    Location:15851643
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  2. XM_011513644.1XP_011511946.1  

    Conserved Domains (2) summary
    cd00014
    Location:26138
    CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...
    cd08368
    Location:15821640
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  3. XM_011513646.1XP_011511948.1  

    Conserved Domains (2) summary
    cd00014
    Location:26138
    CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...
    cd08368
    Location:15561614
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  4. XM_011513643.1XP_011511945.1  

    Conserved Domains (2) summary
    cd00014
    Location:26138
    CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...
    cd08368
    Location:15841642
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  5. XM_011513645.1XP_011511947.1  

    Conserved Domains (2) summary
    cd00014
    Location:26138
    CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...
    cd08368
    Location:15571615
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  6. XM_005248057.1XP_005248114.1  

    Conserved Domains (2) summary
    cd00014
    Location:26138
    CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...
    cd08368
    Location:15601618
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  7. XM_005248058.1XP_005248115.1  

    Conserved Domains (2) summary
    cd00014
    Location:26138
    CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...
    cd08368
    Location:15591617
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  8. XM_005248060.1XP_005248117.1  

    Conserved Domains (2) summary
    cd00014
    Location:26138
    CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...
    cd08368
    Location:15561614
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  9. XM_006713996.1XP_006714059.1  

    Conserved Domains (2) summary
    cd00014
    Location:26138
    CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...
    cd08368
    Location:15301588
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  10. XM_005248061.1XP_005248118.1  

    Conserved Domains (2) summary
    cd00014
    Location:26138
    CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...
    cd08368
    Location:15321590
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  11. XM_011513648.1XP_011511950.1  

    Conserved Domains (2) summary
    cd00014
    Location:26138
    CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...
    cd08368
    Location:15041562
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  12. XM_011513652.1XP_011511954.1  

    Conserved Domains (2) summary
    cd00014
    Location:26138
    CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...
    cd08368
    Location:13941452
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  13. XM_011513653.1XP_011511955.1  

    Conserved Domains (2) summary
    cd00014
    Location:26138
    CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...
    cd08368
    Location:10411099
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  14. XM_005248072.1XP_005248129.1  

    See identical proteins and their annotated locations for XP_005248129.1

    Conserved Domains (2) summary
    cd00014
    Location:26138
    CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...
    cd08368
    Location:10121070
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  15. XM_011513654.1XP_011511956.1  

    Conserved Domains (2) summary
    cd00014
    Location:26138
    CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...
    cd08368
    Location:10291087
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  16. XM_005248074.1XP_005248131.1  

    Conserved Domains (2) summary
    cd00014
    Location:26138
    CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...
    cd08368
    Location:10001058
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  17. XM_005248075.1XP_005248132.1  

    Conserved Domains (2) summary
    cd00014
    Location:26138
    CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...
    cd08368
    Location:9741032
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  18. XM_011513658.1XP_011511960.1  

    Conserved Domains (1) summary
    cd08368
    Location:815873
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  19. XM_011513650.1XP_011511952.1  

    See identical proteins and their annotated locations for XP_011511952.1

    Conserved Domains (1) summary
    cd08368
    Location:14261484
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  20. XM_011513651.1XP_011511953.1  

    See identical proteins and their annotated locations for XP_011511953.1

    Conserved Domains (1) summary
    cd08368
    Location:14261484
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  21. XM_005248067.1XP_005248124.1  

    See identical proteins and their annotated locations for XP_005248124.1

    UniProtKB/TrEMBL
    G5EA03
    Related
    ENSP00000425631, OTTHUMP00000218530, ENST00000503057, OTTHUMT00000361260
    Conserved Domains (1) summary
    cd08368
    Location:13971455
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  22. XM_011513649.1XP_011511951.1  

    Conserved Domains (1) summary
    cd08368
    Location:14311489
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  23. XM_011513656.1XP_011511958.1  

    Related
    ENSP00000421656, OTTHUMP00000218620, ENST00000508466, OTTHUMT00000361480
    Conserved Domains (1) summary
    cd08368
    Location:861919
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  24. XM_011513655.1XP_011511957.1  

    Conserved Domains (1) summary
    cd08368
    Location:875933
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  25. XM_011513657.1XP_011511959.1  

    UniProtKB/TrEMBL
    E9PDJ9
    Related
    ENSP00000422864, OTTHUMP00000218616, ENST00000509277, OTTHUMT00000361476
    Conserved Domains (1) summary
    cd08368
    Location:846904
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers

Alternate CHM1_1.1

Genomic

  1. NC_018915.2 Alternate CHM1_1.1

    Range
    41362176..41702595
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)