Basic information
Locus name	AT3G51880
Alias	HMGB1
Organism	Arabidopsis thaliana
Taxonomic identifier	[NCBI]
Function category	Others
Effect for Senescence	unclear
Gene Description	HIGH MOBILITY GROUP B 1 (HMGB1); FUNCTIONS IN: chromatin binding, transcription factor activity, structural constituent of chromatin, DNA binding; INVOLVED IN: chromatin assembly or disassembly; LOCATED IN: nuclear chromatin, chromatin, cytosol, nucleus; EXPRESSED IN: 26 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: High mobility group, superfamily (InterPro:IPR009071), High mobility group, HMG1/HMG2 (InterPro:IPR000910); BEST Arabidopsis thaliana protein match is: HMGB3 (HIGH MOBILITY GROUP B 3); DNA binding / chromatin binding / structural constituent of chromatin / transcription factor (TAIR:AT1G20696.3); Has 22896 Blast hits to 12639 proteins in 616 species: Archae - 20; Bacteria - 558; Metazoa - 11398; Fungi - 2358; Plants - 1129; Viruses - 394; Other Eukaryotes - 7039 (source: NCBI BLink).
Evidence	Genomic evidence:microarray data [Ref 1]
References	1: Breeze E, Harrison E, McHattie S, Hughes L, Hickman R, Hill C, Kiddle S, Kim YS, Penfold CA, Jenkins D, Zhang C, Morris K, Jenner C, Jackson S, Thomas B, Tabrett A, Legaie R, Moore JD, Wild DL, Ott S, Rand D, Beynon J, Denby K, Mead A, Buchanan-Wollaston High-resolution temporal profiling of transcripts during Arabidopsis leaf senescence reveals a distinct chronology of processes and regulation. Plant Cell 2011 Mar;23(3):873-94
Sequence	AT3G51880.1 | Genomic | mRNA | CDS | Protein AT3G51880.2 | Genomic | mRNA | CDS | Protein AT3G51880.3 | Genomic | mRNA | CDS | Protein AT3G51880.4 | Genomic | mRNA | CDS | Protein
miRNA Interaction
Details	target: AT3G51880.1  miRNA: ath-miR414 miRNA: ath-miR414 mfe: -32.0 kcal/mol  p-value: 0.000258  position: 654  target 5' A               C  C  G  3'             UGACGAUGAUGAUGA GA GA                 ACUGCUACUACUACU CU CU      miRNA  3'                 U  A     5'  target: AT3G51880.2  miRNA: ath-miR414 miRNA: ath-miR414 mfe: -32.0 kcal/mol  p-value: 0.000266  position: 675  target 5' A               C  C  G  3'             UGACGAUGAUGAUGA GA GA                 ACUGCUACUACUACU CU CU      miRNA  3'                 U  A     5'  target: AT3G51880.3  miRNA: ath-miR414 miRNA: ath-miR414 mfe: -32.0 kcal/mol  p-value: 0.000230  position: 582  target 5' A               C  C  G  3'             UGACGAUGAUGAUGA GA GA                 ACUGCUACUACUACU CU CU      miRNA  3'                 U  A     5'  target: AT3G51880.4  miRNA: ath-miR414 miRNA: ath-miR414 mfe: -32.0 kcal/mol  p-value: 0.000213  position: 531  target 5' A               C  C  G  3'             UGACGAUGAUGAUGA GA GA                 ACUGCUACUACUACU CU CU      miRNA  3'                 U  A     5'
Ortholog Group
Ortholog Groups: OG5_126740	Accession Taxon NP_001031074 Arabidopsis thaliana NP_001031075 Arabidopsis thaliana NP_001077569 Arabidopsis thaliana NP_001077570 Arabidopsis thaliana NP_001078269 Arabidopsis thaliana NP_190756 Arabidopsis thaliana NP_564123 Arabidopsis thaliana NP_564124 Arabidopsis thaliana NP_974413 ( AT3G51880 ) Arabidopsis thaliana 142283 Chlamydomonas reinhardtii 151215 Chlamydomonas reinhardtii 192899 Chlamydomonas reinhardtii ACO61991 Micromonas sp. RCC299 ACO61992 Micromonas sp. RCC299 ACO64826 Micromonas sp. RCC299 NP_001058640 Oryza sativa Japonica Group estExt_fgenesh1_pg.C_Chr_15.00010198 Ostreococcus tauri gw1.17.00.287.1 Ostreococcus tauri e_gw1.34.410.1 Physcomitrella patens subsp. patens estExt_fgenesh1_pm.C_880025 Physcomitrella patens subsp. patens gw1.106.59.1 Physcomitrella patens subsp. patens gw1.106.60.1 Physcomitrella patens subsp. patens 29669.m000844 Ricinus communis 29701.m000600 Ricinus communis e_gw1.11a.185.1 Thalassiosira pseudonana CCMP1335 e_gw1.12.237.1 Thalassiosira pseudonana CCMP1335 e_gw1.2.827.1 Thalassiosira pseudonana CCMP1335 XP_002945803 Volvox carteri f. nagariensis XP_002957151 Volvox carteri f. nagariensis
Cross Link
Database Entry ID E-value Start End InterPro ID Description PANTHER PTHR13711 3.5E-37 26 184 No hit NA SUPERFAMILY SSF47095 1.2E-24 44 126 IPR009071 High mobility group (HMG) box domain SMART SM00398 8.9E-27 52 123 IPR009071 High mobility group (HMG) box domain Pfam PF00505 4.7E-25 53 122 IPR009071 High mobility group (HMG) box domain ProSiteProfiles PS50118 18.8 53 122 IPR009071 High mobility group (HMG) box domain Coils Coil NA 104 143 No hit NA
Subcellular Localization
Localization	nucleus
Evidence	SUBAcon
Pubmed ID	23180787