Pavir.J07596 (Panicum virgatum)
Sox

TF Information

Pfam ID Interpro ID Gene ID CIS-BP ID Sequence source
PF00505 (HMG_box) IPR000910 Pavir.J07596 T334683_2.00 JGI:Phytozome (2018-Apr-12)

Directly determined binding motifs

Name/Motif ID Species Forward Reverse Type/Study/Study ID SR
Score		 DBD
Identity
No direct experiments

Motifs from related TFs

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 		0.464 0.629
HMGB13
M07269_2.00 		Arabidopsis thaliana
GGHGGHGGYGGHGGN
NCCDCCRCCDCCDCC		 Dap-seq
OMalley et al.(2016)
3XHMGBOX1_colamp_a 		0.464 0.629
For this family, TFs with SR scores > 0.415 will likely have a similar motif

DNA Binding Domains

Protein ID Domain From To Sequence
Pavir.J07596.1.p Sox 163 228
Pavir.J07596.1.p Sox 285 351
Pavir.J07596.1.p Sox 410 478

Links

Other Sox family TFs
Other Panicum virgatum TFs

61 Related TFs

Name Species Gene ID Motif Evidence SR
Score		 Action
HMGB13 Arabidopsis thaliana AT4G11080 D 0.464
TCM_016416 Theobroma cacao TCM_016416 I 0.505
Solyc08g082070.2 Solanum lycopersicum Solyc08g082070.2 I 0.461
Traes_2AL_72F4E1905 Triticum aestivum Traes_2AL_72F4E1905 I 0.592
VIT_02s0025g01220 Vitis vinifera VIT_02s0025g01220 I 0.554
Cla011101 Citrullus lanatus Cla011101 I 0.522
Pm024077 Prunus mume Pm024077 I 0.487
30190.m010807 Ricinus communis 30190.m010807 I 0.495
Cucsa.107270 Cucumis sativus Cucsa.107270 I 0.461
mgf015439m Mimulus guttatus mgf015439m I 0.540
Aquca_013_00142 Aquilegia coerulea Aquca_013_00142 I 0.508
Bostr.25463s0218 Boechera stricta Bostr.25463s0218 I 0.441
Bostr.7867s0182 Boechera stricta Bostr.7867s0182 I 0.428
Cagra.1226s0043 Capsella grandiflora Cagra.1226s0043 I 0.434
Cagra.3839s0003 Capsella grandiflora Cagra.3839s0003 I 0.441
Carubv10000930m.g Capsella rubella Carubv10000930m.g I 0.450
Ciclev10023918m.g Citrus clementina Ciclev10023918m.g I 0.433
Eucgr.E00847 Eucalyptus grandis Eucgr.E00847 I 0.499
evm.TU.supercontig_122.41 Carica papaya evm.TU.supercontig_122.41 I 0.460
gene32050-v1.0-hybrid Fragaria vesca gene32050-v1.0-hybrid I 0.421
Gorai.007G025500 Gossypium raimondii Gorai.007G025500 I 0.520
Lus10001909.g Linum usitatissimum Lus10001909.g I 0.488
Lus10003904.g Linum usitatissimum Lus10003904.g I 0.478
Lus10032379.g Linum usitatissimum Lus10032379.g I 0.461
Pavir.Ab01026 Panicum virgatum Pavir.Ab01026 I 0.707
SapurV1A.0035s0680 Salix purpurea SapurV1A.0035s0680 I 0.444
Thhalv10025168m.g Eutrema salsugineum Thhalv10025168m.g I 0.434
Thhalv10028648m.g Eutrema salsugineum Thhalv10028648m.g I 0.432
PK10992.1 Cannabis sativa PK10992.1 I 0.459
chr4.CM0025.190.nd Lotus japonicus chr4.CM0025.190.nd I 0.452
HMGB6 Arabidopsis thaliana AT4G23800 I 0.442
BRADI3G09690 Brachypodium distachyon BRADI3G09690 I 0.703
fgenesh2_kg.6__3081__AT4G11080.1 Arabidopsis lyrata fgenesh2_kg.6__3081__AT4G11080.1 I 0.452
GLYMA05G37010 Glycine max GLYMA05G37010 I 0.469
Bra035256 Brassica rapa Bra035256 I 0.434
GRMZM2G060253 Zea mays GRMZM2G060253 I 0.687
GSMUA_Achr6G14260_001 Musa acuminata GSMUA_Achr6G14260_001 I 0.511
Bra013731 Brassica rapa Bra013731 I 0.422
Bo1g037180 Brassica oleracea Bo1g037180 I 0.422
BGIOSGA006746 Oryza indica BGIOSGA006746 I 0.602
OBART02G11160 Oryza barthii OBART02G11160 I 0.602
OGLUM02G11100 Oryza glumaepatula OGLUM02G11100 I 0.602
ONIVA02G12490 Oryza nivara ONIVA02G12490 I 0.602
OPUNC02G09900 Oryza punctata OPUNC02G09900 I 0.602
ORUFI02G11130 Oryza rufipogon ORUFI02G11130 I 0.602
PGSC0003DMG400012298 Solanum tuberosum PGSC0003DMG400012298 I 0.459
POPTR_0001s10410 Populus trichocarpa POPTR_0001s10410 I 0.425
POPTR_0003s13780 Populus trichocarpa POPTR_0003s13780 I 0.457
PRUPE_ppa004611mg Prunus persica PRUPE_ppa004611mg I 0.487
Sb04g009610 Sorghum bicolor Sb04g009610 I 0.708
Si017040m.g Setaria italica Si017040m.g I 0.689
PDK_20s1767201g001 Phoenix dactylifera PDK_20s1767201g001 N 0.418
AMTR_s00093p00057150 Amborella trichopoda AMTR_s00093p00057150 N 0.485
Lus10033951.g Linum usitatissimum Lus10033951.g N 0.415
F775_10696 Aegilops tauschii F775_10696 N 0.498
GLYMA08G02550 Glycine max GLYMA08G02550 N 0.450
LPERR02G09420 Leersia perrieri LPERR02G09420 N 0.627
MLOC_57360 Hordeum vulgare MLOC_57360 N 0.589
OB02G19930 Oryza brachyantha OB02G19930 N 0.639
OLONG_021730 Oryza longistaminata OLONG_021730 N 0.589
OMERI02G11890 Oryza meridionalis OMERI02G11890 N 0.620