SHL1 PHD finger family protein / bromo-adjacent homology (BAH) domain-containing protein [Arabidopsis thaliana (thale cress)] - Gene

Summary

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Official Symbol: SHL1
Official Full Name: PHD finger family protein / bromo-adjacent homology (BAH) domain-containing protein
Primary source: TAIR:AT4G39100
Locus tag: AT4G39100
See related: Araport:AT4G39100
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Arabidopsis thaliana (ecotype: Columbia)
Lineage: Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Also known as: short life; T22F8.2
Summary: Putative transcription factor containing a PHD finger and BAH motif, required for normal development
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Genomic context

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See SHL1 in Genome Data Viewer

Location:: chromosome: 4

Exon count:: 5

Sequence:: Chromosome: 4; NC_003075.7 (18217629..18220324, complement)

Chromosome 4 - NC_003075.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003075.7

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Data show that plant homeodomain (PHD) motif containing proteins SHORT LIFE (SHL) and EARLY BOLTING IN SHORT DAYS (EBS), function function in the chromatin-mediated repression of floral initiation.
Title: Chromatin-dependent repression of the Arabidopsis floral integrator genes involves plant specific PHD-containing proteins.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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NM_001204030.2

Supported by ESTs:

NM_120070.3

Supported by ESTs:

Gene Ontology Provided by TAIR

Function	Evidence Code	Pubs
enables DNA-binding transcription factor activity	ISS Inferred from Sequence or Structural Similarity more info	PubMed
enables chromatin binding	IEA Inferred from Electronic Annotation more info
enables methylated histone binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables transcription cis-regulatory region binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in negative regulation of gene expression, epigenetic	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within post-embryonic development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in post-embryonic development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of photoperiodism, flowering	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within vegetative to reproductive phase transition of meristem	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	ISM Inferred from Sequence Model more info

General protein information

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Preferred Names: PHD finger family protein / bromo-adjacent homology (BAH) domain-containing protein

NP_001190959.1

short life (SHL1); CONTAINS InterPro DOMAIN/s: Bromo adjacent homology (BAH) domain (InterPro:IPR001025); BEST Arabidopsis thaliana protein match is: PHD finger family protein / bromo-adjacent homology (BAH) domain-containing protein (TAIR:AT4G22140.1).

NP_568053.1

short life (SHL1); CONTAINS InterPro DOMAIN/s: Zinc finger, PHD-type, conserved site (InterPro:IPR019786), Zinc finger, PHD-type (InterPro:IPR001965), Bromo adjacent homology (BAH) domain (InterPro:IPR001025), Zinc finger, FYVE/PHD-type (InterPro:IPR011011), Zinc finger, PHD-finger (InterPro:IPR019787); BEST Arabidopsis thaliana protein match is: PHD finger family protein / bromo-adjacent homology (BAH) domain-containing protein (TAIR:AT4G22140.2); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (source: NCBI BLink).

NCBI Reference Sequences (RefSeq)

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Genome Annotation

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

Reference assembly

Genomic

NC_003075.7 Reference assembly

Range

18217629..18220324 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001204030.2 → NP_001190959.1 PHD finger family protein / bromo-adjacent homology (BAH) domain-containing protein [Arabidopsis thaliana]

See identical proteins and their annotated locations for NP_001190959.1

Status: REVIEWED

UniProtKB/TrEMBL

F4JV93

Conserved Domains (1) summary

cl02608
Location:23 → 157

BAH; or Bromo Adjacent Homology domain (also called ELM1 and BAM for Bromo Adjacent Motif). BAH domains have first been described as domains found in the polybromo protein and Yeast Rsc1/Rsc2 (Remodeling of the Structure of Chromatin). They also occur in ...
NM_120070.3 → NP_568053.1 PHD finger family protein / bromo-adjacent homology (BAH) domain-containing protein [Arabidopsis thaliana]

See identical proteins and their annotated locations for NP_568053.1

Status: REVIEWED

UniProtKB/Swiss-Prot

Q8L975, Q9FEN9, Q9SVI4

UniProtKB/TrEMBL

A0A178UWF3, A0A5S9XZY6, A0A654FWY5

Conserved Domains (2) summary

cl02608
Location:23 → 157

BAH; or Bromo Adjacent Homology domain (also called ELM1 and BAM for Bromo Adjacent Motif). BAH domains have first been described as domains found in the polybromo protein and Yeast Rsc1/Rsc2 (Remodeling of the Structure of Chromatin). They also occur in ...

cl22851
Location:141 → 187

PHD_SF; PHD finger superfamily