Format

Send to:

Choose Destination

LHY Homeodomain-like superfamily protein [ Arabidopsis thaliana (thale cress) ]

Gene ID: 839341, updated on 4-Jul-2019

Summary

Gene symbol
LHY
Gene description
Homeodomain-like superfamily protein
Primary source
Araport:AT1G01060
Locus tag
AT1G01060
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Arabidopsis thaliana (ecotype: Columbia)
Lineage
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliophyta; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Also known as
LATE ELONGATED HYPOCOTYL; LATE ELONGATED HYPOCOTYL 1; LHY1; T25K16.6; T25K16_6
Summary
LHY encodes a myb-related putative transcription factor involved in circadian rhythm along with another myb transcription factor CCA1

Genomic context

See LHY in Genome Data Viewer
Location:
chromosome: 1
Exon count:
11
Sequence:
Chromosome: 1; NC_003070.9 (33365..37871, complement)

Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene dicer-like 1 Neighboring gene miscRNA Neighboring gene pyrophosphorylase 1 Neighboring gene ncRNA Neighboring gene nodulin MtN21 /EamA-like transporter family protein Neighboring gene ncRNA

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Pathways from BioSystems

  • Circadian rhythm - plant, organism-specific biosystem (from KEGG)
    Circadian rhythm - plant, organism-specific biosystemThe circadian system is an endogenous rhythm with the period of about 24 hours to provide temporal organization of biological activity. In Arabidopsis the circadian oscillator at the core of this sys...
  • Circadian rhythm - plant, conserved biosystem (from KEGG)
    Circadian rhythm - plant, conserved biosystemThe circadian system is an endogenous rhythm with the period of about 24 hours to provide temporal organization of biological activity. In Arabidopsis the circadian oscillator at the core of this sys...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

NM_001035847.1
NM_001083968.1
NM_001197953.1
NM_001331247.1
NM_001331248.1
NM_099988.4
NM_179237.1

Gene Ontology Provided by TAIR

Function Evidence Code Pubs
DNA binding IEA
Inferred from Electronic Annotation
more info
 
DNA-binding transcription factor activity IDA
Inferred from Direct Assay
more info
PubMed 
DNA-binding transcription factor activity ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
transcription regulatory region DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
circadian rhythm IGI
Inferred from Genetic Interaction
more info
PubMed 
long-day photoperiodism, flowering IGI
Inferred from Genetic Interaction
more info
PubMed 
negative regulation of DNA-binding transcription factor activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of circadian rhythm IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of circadian rhythm IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of transcription, DNA-templated ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
regulation of transcription, DNA-templated TAS
Traceable Author Statement
more info
PubMed 
response to abscisic acid IEP
Inferred from Expression Pattern
more info
PubMed 
response to auxin IEP
Inferred from Expression Pattern
more info
PubMed 
response to cadmium ion IEP
Inferred from Expression Pattern
more info
PubMed 
response to cold IGI
Inferred from Genetic Interaction
more info
PubMed 
response to ethylene IEP
Inferred from Expression Pattern
more info
PubMed 
response to gibberellin IEP
Inferred from Expression Pattern
more info
PubMed 
response to jasmonic acid IEP
Inferred from Expression Pattern
more info
PubMed 
response to salicylic acid IEP
Inferred from Expression Pattern
more info
PubMed 
response to salt stress IEP
Inferred from Expression Pattern
more info
PubMed 
Component Evidence Code Pubs
nucleus IEA
Inferred from Electronic Annotation
more info
 
nucleus ISM
Inferred from Sequence Model
more info
 

General protein information

Preferred Names
Homeodomain-like superfamily protein
NP_001030924.1
  • LATE ELONGATED HYPOCOTYL (LHY); CONTAINS InterPro DOMAIN/s: SANT, DNA-binding (InterPro:IPR001005), Homeodomain-like (InterPro:IPR009057), Myb, DNA-binding (InterPro:IPR014778), HTH transcriptional regulator, Myb-type, DNA-binding (InterPro:IPR017930), Myb-like DNA-binding domain, SHAQKYF class (InterPro:IPR006447); BEST Arabidopsis thaliana protein match is: circadian clock associated 1 (TAIR:AT2G46830.1); Has 35333 Blast hits to 34131 proteins in 2444 species: Archae - 798; Bacteria - 22429; Metazoa - 974; Fungi - 991; Plants - 531; Viruses - 0; Other Eukaryotes - 9610 (source: NCBI BLink).
NP_001077437.1
  • LATE ELONGATED HYPOCOTYL (LHY); CONTAINS InterPro DOMAIN/s: SANT, DNA-binding (InterPro:IPR001005), Myb, DNA-binding (InterPro:IPR014778), Homeodomain-like (InterPro:IPR009057), Myb-like DNA-binding domain, SHAQKYF class (InterPro:IPR006447), HTH transcriptional regulator, Myb-type, DNA-binding (InterPro:IPR017930); BEST Arabidopsis thaliana protein match is: circadian clock associated 1 (TAIR:AT2G46830.1); Has 2567 Blast hits to 2041 proteins in 275 species: Archae - 2; Bacteria - 252; Metazoa - 294; Fungi - 166; Plants - 1044; Viruses - 30; Other Eukaryotes - 779 (source: NCBI BLink).
NP_001184882.1
  • LATE ELONGATED HYPOCOTYL (LHY); FUNCTIONS IN: DNA binding, sequence-specific DNA binding transcription factor activity; INVOLVED IN: in 11 processes; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; BEST Arabidopsis thaliana protein match is: circadian clock associated 1 (TAIR:AT2G46830.1).
NP_171614.1
  • LATE ELONGATED HYPOCOTYL (LHY); CONTAINS InterPro DOMAIN/s: SANT, DNA-binding (InterPro:IPR001005), Homeodomain-like (InterPro:IPR009057), Myb, DNA-binding (InterPro:IPR014778), HTH transcriptional regulator, Myb-type, DNA-binding (InterPro:IPR017930), Myb-like DNA-binding domain, SHAQKYF class (InterPro:IPR006447); BEST Arabidopsis thaliana protein match is: circadian clock associated 1 (TAIR:AT2G46830.1); Has 2469 Blast hits to 2022 proteins in 280 species: Archae - 2; Bacteria - 257; Metazoa - 292; Fungi - 162; Plants - 1048; Viruses - 29; Other Eukaryotes - 679 (source: NCBI BLink).
NP_849568.1
  • LATE ELONGATED HYPOCOTYL (LHY); CONTAINS InterPro DOMAIN/s: SANT, DNA-binding (InterPro:IPR001005), Homeodomain-like (InterPro:IPR009057), Myb, DNA-binding (InterPro:IPR014778), HTH transcriptional regulator, Myb-type, DNA-binding (InterPro:IPR017930), Myb-like DNA-binding domain, SHAQKYF class (InterPro:IPR006447); BEST Arabidopsis thaliana protein match is: circadian clock associated 1 (TAIR:AT2G46830.1); Has 2469 Blast hits to 2022 proteins in 280 species: Archae - 2; Bacteria - 257; Metazoa - 292; Fungi - 162; Plants - 1048; Viruses - 29; Other Eukaryotes - 679 (source: NCBI BLink).

NCBI Reference Sequences (RefSeq)

Genome Annotation

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

Reference assembly

Genomic

  1. NC_003070.9 Reference assembly

    Range
    33365..37871 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001331246.1NP_001320628.1  Homeodomain-like superfamily protein [Arabidopsis thaliana]

    Status: REVIEWED

    UniProtKB/TrEMBL
    F4HQH3
  2. NM_001035847.1NP_001030924.1  Homeodomain-like superfamily protein [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_001030924.1

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    Q6R0H1
    UniProtKB/TrEMBL
    A0A178W761
    Conserved Domains (2) summary
    TIGR01557
    Location:2272
    myb_SHAQKYF; myb-like DNA-binding domain, SHAQKYF class
    smart00717
    Location:2471
    SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
  3. NM_001331247.1NP_001320627.1  Homeodomain-like superfamily protein [Arabidopsis thaliana]

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    Q6R0H1
    UniProtKB/TrEMBL
    A0A178W761
  4. NM_099988.4NP_171614.1  Homeodomain-like superfamily protein [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_171614.1

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    Q6R0H1
    UniProtKB/TrEMBL
    A0A178W761
    Conserved Domains (2) summary
    TIGR01557
    Location:2272
    myb_SHAQKYF; myb-like DNA-binding domain, SHAQKYF class
    smart00717
    Location:2471
    SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
  5. NM_001083968.1NP_001077437.1  Homeodomain-like superfamily protein [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_001077437.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    A0A178W696, F4HQG9
    Conserved Domains (2) summary
    TIGR01557
    Location:2272
    myb_SHAQKYF; myb-like DNA-binding domain, SHAQKYF class
    smart00717
    Location:2471
    SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
  6. NM_179237.1NP_849568.1  Homeodomain-like superfamily protein [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_849568.1

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    Q6R0H1
    UniProtKB/TrEMBL
    A0A178W761
    Conserved Domains (2) summary
    TIGR01557
    Location:2272
    myb_SHAQKYF; myb-like DNA-binding domain, SHAQKYF class
    smart00717
    Location:2471
    SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
  7. NM_001197953.1NP_001184882.1  Homeodomain-like superfamily protein [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_001184882.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    F4HQH3
    Conserved Domains (1) summary
    PTZ00121
    Location:430531
    PTZ00121; MAEBL; Provisional
  8. NM_001331248.1NP_001320629.1  Homeodomain-like superfamily protein [Arabidopsis thaliana]

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    Q6R0H1
    UniProtKB/TrEMBL
    A0A178W761
Support Center