Locus: AT5G05330
    
Representative Gene Model (?)   
AT5G05330.1
Gene Model Type    protein_coding
Other names:   
Description (?)   Encodes a protein with a putative HMG-box domain. The high-mobility group (HMG) proteins are chromatin-associated proteins that act as architectural factors in various nucleoprotein structures, which regulate DNA-dependent processes such as transcription and recombination. Expression of this gene was not detected according to Grasser et al. (J. Mol. Biol. 2006:358, 654-664).
Other Gene Models (?)  
AT5G05330.2
(splice variant)  		 AT5G05330.3
(splice variant)  
Map Detail Image  

Center on AT5G05330 | Full-screen view

Annotations (?)  
category   relationship type (?)   keyword (?)
GO Biological Process   involved in   polar nucleus fusion
GO Cellular Component   is active in   nucleus
GO Cellular Component   located in   nucleus
GO Molecular Function   enables   DNA binding, protein binding
Plant structure   expressed in   guard cell
Annotation Detail
Sequence (?)   full length CDS   full length genomic   full length cDNA   protein
Associated Transcripts (?)  
type number associated
EST ( 42 )
cDNA ( 5 )
BAR eFP Browser  
Chromosome   5
Protein Data (?)  
name   length(aa)   molecular weight   isoelectric point   INTERPRO domains
AT5G05330.1    220    25933.9    6.37    HMG_box_dom:IPR009071
                HMG_box_dom_sf:IPR036910
Plant Homologs (?)  
treeviewer phylogenes View complete family and tree
Arabidopsis paralogs (?)
AT5G23405, AT5G23420(HMGB6)
Plant orthologs (?)
Eudicotyledons
Brassica napus1
Brassica rapa2
Capsicum annuum1
Citrus sinensis1
Eucalyptus grandis1
Gossypium hirsutum2
Helianthus annuus1
Juglans regia1
Lactuca sativa1
Manihot esculenta1
Medicago truncatula1
Nicotiana tabacum2
Populus trichocarpa2
Prunus persica1
Ricinus communis1
Solanum lycopersicum1
Solanum tuberosum1
Spinacia oleracea1
Theobroma cacao1
Monocotyledons
Brachypodium distachyon1
Hordeum vulgare1
Musa acuminata1
Oryza sativa1
Setaria italica1
Sorghum bicolor1
Triticum aestivum3
Zea mays2
Zostera marina1
  
Other plants
Amborella trichopoda1
Klebsormidium nitens1
Nelumbo nucifera2
Physcomitrella patens1
Search Gene Families   
EnsemblPlants    PhyloGenes
InParanoid Ortholog Groups    Phytozome
PANTHER    PLAZA
Map Locations
(?)		  
chrom map map type (?) coordinates orientation attrib
5 AGI nuc_sequence 1576982 - 1578768 bp reverse   details
Map Links (?)   MapViewer     Sequence Viewer     GBrowse     JBrowse
Polymorphism (?)
Showing 15 of 26 entries
(see all)		  
name (?)   type (?)   polymorphism site   gene names   allele type (?)
GABI_791B03   insertion   coding_region   AT5G05330.3, AT5G05330.1   unknown
GABI_852C02   insertion   5'UTR   AT5G05330.2   unknown
GABI_852C02   insertion   coding_region   AT5G05330.3, AT5G05330.1   unknown
GK-322E12-015950   insertion   promoter   AT5G05330.3, AT5G05330.2, AT5G05330.1   unknown
GK-572A10-021191   insertion   promoter   AT5G05330.3, AT5G05330.2, AT5G05330.1   unknown
GK-572A10-021193   insertion   promoter   AT5G05330.3, AT5G05330.2, AT5G05330.1   unknown
GK-791B03-024937   insertion   exon   AT5G05330.3, AT5G05330.1   unknown
GK-791B03-024937   insertion   promoter   AT5G05330.2   unknown
GK-791B03-024967   insertion   exon   AT5G05330.3, AT5G05330.1   unknown
GK-791B03-024967   insertion   promoter   AT5G05330.2   unknown
GK-852C02-025757   insertion   exon   AT5G05330.3, AT5G05330.2, AT5G05330.1   unknown
GK-852C02-025844   insertion   exon   AT5G05330.3, AT5G05330.2, AT5G05330.1   unknown
SALK_119741.40.15.x   insertion   exon   AT5G05330.3, AT5G05330.2, AT5G05330.1   unknown
SALK_134540.44.40.x   insertion   exon   AT5G05330.3, AT5G05330.2, AT5G05330.1   unknown
SALKseq_065921.2   insertion   intron   AT5G05330.3, AT5G05330.2, AT5G05330.1   unknown
Germplasm
(?)
Showing 9 of 9 entries
  
name   polymorphisms   background   stock name
SALK_065921   SALK_065921; SALKseq_065921.1; SALKseq_065921.2     SALK_065921
images
None available  
phenotypes (?)
None available
SALK_078897   SALK_078897.35.55.x; SALKseq_078897.0; SALKseq_078897.1     SALK_078897
images
None available  
phenotypes (?)
None available
WISCDSLOX2G9   WiscDsLox2G9; WiscDsLox2G9.0; WiscDsLox2G9.1     CS849067
images
None available  
phenotypes (?)
None available
SALK_119741   SALK_119741.40.15.x     SALK_119741
images
None available  
phenotypes (?)
None available
SALK_134540   SALK_134540.44.40.x     SALK_134540
images
None available  
phenotypes (?)
None available
SALK_134540C   SALK_134540.44.40.x     SALK_134540C
images
None available  
phenotypes (?)
None available
SALK_119741C   SALK_119741.40.15.x     SALK_119741C
images
None available  
phenotypes (?)
None available
WiscDsLoxHs119_09C   WiscDsLoxHs119_09C.1     CS911395
images
None available  
phenotypes (?)
None available
SK406   SK406     CS1000188
images
None available  
phenotypes (?)
None available
(European Users)
Clones (?)
(showing 14 of 14 entries)
  
Clone Name Aliases GenBank
Accession		 Vector
Type		 Stock Number
PENTR221-AT5G05330    AY954865
plasmid  PENTR221-AT5G05330
CATMA5A04510    plasmid  CD260837
CSHL_067308  AMR4844-99728775  plasmid  CSHL_067308
DKLAT5G05330.1    plasmid  DKLAT5G05330.1
TOPO-U16-F11    plasmid  TOPO-U16-F11
DEST-U16-F11    plasmid  DEST-U16-F11
HALO_TF-18_G08    plasmid  HALO_TF-18_G08
PADLOX-TF-16-F11    plasmid  PADLOX-TF-16-F11
PDBLOX-TF-16-F11    plasmid  PDBLOX-TF-16-F11
01556    DQ132722
 
01555    DQ132721
 
01554    DQ132720
 
01553    DQ132719
 
CATMA5A04510D    plasmid 
External Link (?)   
Epigenomics
  Danforth Center Small RNA/PARE/Methylation
Expression/Localization
  AraQTL
  ATTED-II
  Eukaryotic Promoter Database (EPD)
  The Subcellular Location of Proteins in Arabidopsis Database (SUBA)
  TraVA:Transcription Variation Analysis
Gene Families   Links moved to Gene Families band [show me where]
Genomics
  AceView
  Gramene
  MIPS
  NCBI-Entrez Gene
  Thalemine at BAR
Interactions
  BioGRID
Other
  BAR ePlant
  BAR ePlant Molecule View
Polymorphisms/Alleles/Variants
  Salk SNP Viewer
  T-DNA Express
Proteomics
  AlphaFold Protein Structure Database
  Functional Analysis Tools for Post-Translational Modifications(FAT-PTM)
  Plant Proteome Database
  Plant PTM Viewer
Reagents
  Agrisera (antibody)
  Arabidopsis Biological Resource Center (ABRC) (Seed/DNA)
  PhytoAB (antibody)
  RIKEN BioResource Research Center (Seed/DNA)
Community Comments (?) (shows only the most recent comments by default)
 
     
Publication (?)   
author/title     source     associated loci     date
Grasser, Marion, Lentz, Anne, Lichota, Jacek, Merkle, Thomas, Grasser, Klaus D
The Arabidopsis Genome Encodes Structurally and Functionally Diverse HMGB-type Proteins.
     JOURNAL OF MOLECULAR BIOLOGY     AT3G28730  AT5G05330      2006
Grasser, K D,Grill, S,Duroux, M,Launholt, D,Thomsen, M S,Nielsen, B V,Nielsen, H K,Merkle, T
HMGB6 from Arabidopsis thaliana specifies a novel type of plant chromosomal HMGB protein.
     BIOCHEMISTRY     AT1G20693  AT1G20696  AT1G76110  AT2G17560  AT2G34450  AT3G13350  AT3G28730  AT3G43530  AT4G11080  AT4G23800  AT5G05330  AT5G23405  AT5G23420      2004
Dal Bosco, C,Lezhneva, L,Biehl, A,Leister, D,Strotmann, H,Wanner, G,Meurer, J
Inactivation of the chloroplast ATP synthase gamma subunit results in high non-photochemical fluorescence quenching and altered nuclear gene expression in Arabidopsis thaliana.
     JOURNAL OF BIOLOGICAL CHEMISTRY     AT1G01080  AT1G01090  AT1G01250  AT1G01290  AT1G01500  AT1G01520  AT1G01550  AT1G01690  AT1G01730  AT1G01860  AT1G01950  AT1G02020  AT1G02060  AT1G02070  AT1G02150  AT1G02170  AT1G02260  AT1G02560  AT1G02680  AT1G02730  more...     2003
Date last modified    2013-02-11
TAIR Accession    Locus:2153514