HMGB13 (Arabidopsis thaliana)
Sox

TF Information

Pfam ID Interpro ID Gene ID CIS-BP ID Sequence source Animal TF db
PF00505 (HMG_box) IPR000910 AT4G11080 T326482_2.00 Ensembl (2018-Dec-8) Link out
NCBI Gene Info:
Encodes a protein containing three copies of the HMG (high mobility group)-box domain. The two Arabidopsis 3xHMG-box proteins are: AT4G11080 (3xHMG-box1) and AT4G23800 (3xHMG-box2). Interacts with mitotic and meiotic chromosomes.

Directly determined binding motifs

Name/Motif ID Species Forward Reverse Type/Study/Study ID SR
Score		 DBD
Identity
HMGB13
M07268_2.00		 Arabidopsis thaliana
HNHYNBNNNHDYCDCCGCCRB
VYGGCGGHGRHDNNNVNRDND		 Dap-seq
OMalley et al.(2016)
3XHMGBOX1_col_a		 (Direct) (Direct)
HMGB13
M07269_2.00		 Arabidopsis thaliana
GGHGGHGGYGGHGGN
NCCDCCRCCDCCDCC		 Dap-seq
OMalley et al.(2016)
3XHMGBOX1_colamp_a		 (Direct) (Direct)

Motifs from related TFs

Name/Motif ID Species Forward Reverse Type/Study/Study ID SR
Score		 DBD
Identity
For this family, TFs with SR scores > 0.415 will likely have a similar motif

DNA Binding Domains

Protein ID Domain From To Sequence
AT4G11080.1 Sox 129 196
AT4G11080.1 Sox 246 312
AT4G11080.1 Sox 372 440

Links

Other Sox family TFs
Other Arabidopsis thaliana TFs

55 Related TFs

Name Species Gene ID Motif Evidence SR
Score		 Action
fgenesh2_kg.6__3081__AT4G11080.1 Arabidopsis lyrata fgenesh2_kg.6__3081__AT4G11080.1 I 0.706
Bostr.25463s0218 Boechera stricta Bostr.25463s0218 I 0.692
Carubv10000930m.g Capsella rubella Carubv10000930m.g I 0.671
Cagra.3839s0003 Capsella grandiflora Cagra.3839s0003 I 0.663
Thhalv10028648m.g Eutrema salsugineum Thhalv10028648m.g I 0.662
HMGB6 Arabidopsis thaliana AT4G23800 I 0.597
Cagra.1226s0043 Capsella grandiflora Cagra.1226s0043 I 0.591
Bostr.7867s0182 Boechera stricta Bostr.7867s0182 I 0.590
Bra035256 Brassica rapa Bra035256 I 0.583
Carubv10007590m.g Capsella rubella Carubv10007590m.g I 0.566
Lus10003904.g Linum usitatissimum Lus10003904.g I 0.553
Thhalv10025168m.g Eutrema salsugineum Thhalv10025168m.g I 0.552
Lus10001909.g Linum usitatissimum Lus10001909.g I 0.537
SapurV1A.0035s0680 Salix purpurea SapurV1A.0035s0680 I 0.529
Bo1g037180 Brassica oleracea Bo1g037180 I 0.524
Bra013731 Brassica rapa Bra013731 I 0.524
TCM_016416 Theobroma cacao TCM_016416 I 0.519
Pm024077 Prunus mume Pm024077 I 0.515
PRUPE_ppa004611mg Prunus persica PRUPE_ppa004611mg I 0.515
POPTR_0003s13780 Populus trichocarpa POPTR_0003s13780 I 0.514
gene32050-v1.0-hybrid Fragaria vesca gene32050-v1.0-hybrid I 0.513
POPTR_0001s10410 Populus trichocarpa POPTR_0001s10410 I 0.510
mgf015439m Mimulus guttatus mgf015439m I 0.506
PK10992.1 Cannabis sativa PK10992.1 I 0.503
Lus10032379.g Linum usitatissimum Lus10032379.g I 0.503
Cucsa.107270 Cucumis sativus Cucsa.107270 I 0.502
Cla011101 Citrullus lanatus Cla011101 I 0.494
Aquca_013_00142 Aquilegia coerulea Aquca_013_00142 I 0.490
evm.TU.supercontig_122.41 Carica papaya evm.TU.supercontig_122.41 I 0.485
30190.m010807 Ricinus communis 30190.m010807 I 0.483
Eucgr.E00847 Eucalyptus grandis Eucgr.E00847 I 0.479
VIT_02s0025g01220 Vitis vinifera VIT_02s0025g01220 I 0.476
Gorai.007G025500 Gossypium raimondii Gorai.007G025500 I 0.466
BRADI3G09690 Brachypodium distachyon BRADI3G09690 I 0.465
Pavir.J07596 Panicum virgatum Pavir.J07596 I 0.464
Solyc08g082070.2 Solanum lycopersicum Solyc08g082070.2 I 0.463
PGSC0003DMG400012298 Solanum tuberosum PGSC0003DMG400012298 I 0.461
MDP0000268093 Malus domestica MDP0000268093 I 0.460
Sb04g009610 Sorghum bicolor Sb04g009610 I 0.446
Ca_05811 Cicer arietinum Ca_05811 I 0.445
Ciclev10023918m.g Citrus clementina Ciclev10023918m.g I 0.445
Si017040m.g Setaria italica Si017040m.g I 0.443
chr4.CM0025.190.nd Lotus japonicus chr4.CM0025.190.nd I 0.436
Traes_2AL_72F4E1905 Triticum aestivum Traes_2AL_72F4E1905 I 0.431
Pavir.Ab01026 Panicum virgatum Pavir.Ab01026 I 0.430
BGIOSGA006746 Oryza indica BGIOSGA006746 I 0.423
OGLUM02G11100 Oryza glumaepatula OGLUM02G11100 I 0.423
OBART02G11160 Oryza barthii OBART02G11160 I 0.423
ORUFI02G11130 Oryza rufipogon ORUFI02G11130 I 0.423
ONIVA02G12490 Oryza nivara ONIVA02G12490 I 0.423
OPUNC02G09900 Oryza punctata OPUNC02G09900 I 0.421
GRMZM2G060253 Zea mays GRMZM2G060253 I 0.421
GSMUA_Achr6G14260_001 Musa acuminata GSMUA_Achr6G14260_001 I 0.419
MTR_8g099305 Medicago truncatula MTR_8g099305 I 0.417
GLYMA05G37010 Glycine max GLYMA05G37010 I 0.415