CIS-BP Database: Catalog of Inferred Sequence Binding Preferences
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Pavir.J04920
(
Panicum virgatum
)
Sox
TF Information
Pfam ID
Interpro ID
Gene ID
CIS-BP ID
Sequence source
PF00505 (HMG_box)
IPR000910
Pavir.J04920
T334681_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
HMG-1
M02720_2.00
Pisum sativum
STYGTDHTY
RADHACRAS
SELEX
Mathelier et al.(2014)
MA0044.1
0.645
0.696
NHP6A
M01566_2.00
Saccharomyces cerevisiae
NHRYWWWN
NWWWRYDN
PBM
Zhu et al.(2009)
Nhp6a
0.443
0.420
NHP6A
M08606_2.00
Saccharomyces cerevisiae
DNDHNNWTATATADWRDNNDN
NHNNHYWHTATATAWNNDHNH
Misc
DeBoer et al.(2011)
YPR052C_879
0.443
0.420
NHP6B
M01565_2.00
Saccharomyces cerevisiae
NNWHWRYDNN
NNHRYWDWNN
PBM
Zhu et al.(2009)
Nhp6b
0.437
0.391
NHP6B
M08603_2.00
Saccharomyces cerevisiae
HNTHHNWWTATAWWWWRNDN
NHNYWWWWTATAWWNDDAND
Misc
DeBoer et al.(2011)
YBR089C-A_792
0.437
0.391
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.J04920.1.p
Sox
41
110
PKRAPSAFFVFMEEFRKEFKEKNPKNKSVAAVGKAAGDRWKSLTEADKAPYVAKANKLKLEYNKAIAAYN
Pavir.J04920.2.p
Sox
41
110
PKRAPSAFFVFMEEFRKEFKEKNPKNKSVAAVGKAAGDRWKSLTEADKAPYVAKANKLKLEYNKAIAAYN
Pavir.J04920.3.p
Sox
41
110
PKRAPSAFFVFMEEFRKEFKEKNPKNKSVAAVGKAAGDRWKSLTEADKAPYVAKANKLKLEYNKAIAAYN
Links
Other
Sox
family TFs
Other
Panicum virgatum
TFs
450 Related TFs
Name
Species
Gene ID
Motif Evidence
SR
Score
Action
Invalid Input OrderBy