CIS-BP Database: Catalog of Inferred Sequence Binding Preferences
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IDD1
(
Arabidopsis thaliana
)
C2H2 ZF
TF Information
Pfam ID
Interpro ID
Gene ID
CIS-BP ID
Sequence source
Animal TF db
PF00096 (zf-C2H2)
IPR007087
AT5G66730
T080890_2.00
Ensembl (2018-Dec-8)
Link out
NCBI Gene Info:
JKD is a nuclear-localized putative transcription factor with three zinc finger domains. jkd mutants show a number of root patterning defects including ectopic periclinal divisions in the cortex, increased cell numbers in the cortical and epidermal layers, a disrupted QC marker expression pattern, and disorganized QC and columella cells. jkd mutants also have a reduced number of meristematic cells in their roots. JKD can interact with the SCR and SHR proteins implicated in root patterning, as well as another zinc finger transcription factor, MAGPIE. All of these interactions require the first zinc finger in JKD according to a Y2H assay. There are also transcriptional interactions among these proteins. The initiation of JKD transcription does not appear to depend on SCR and SHR, but later expression in the post-embryonic QC cells and ground tissue initials is reduced in scr and shr mutants. JKD also appears to be required for SCR transcription beginning in the embryo. There is also some evidence that JKD plays a role in promoting the movement of SHR into the nucleus, particularly in QC cells, but this may be indirect.
Directly determined binding motifs
Name/Motif ID
Species
Forward
Reverse
Type/Study/Study ID
SR
Score
DBD
Identity
IDD1
M06824_2.00
Arabidopsis thaliana
DNTTTTGTCKTTTWBYD
HRVWAAAMGACAAAANH
Dap-seq
OMalley et al.(2016)
At5g66730_colamp_a
(Direct)
(Direct)
IDD1
M06825_2.00
Arabidopsis thaliana
WDTTTTGTCKTTTWNYD
HRNWAAAMGACAAAAHW
Dap-seq
OMalley et al.(2016)
At5g66730_col
(Direct)
(Direct)
Motifs from related TFs
Name/Motif ID
Species
Forward
Reverse
Type/Study/Study ID
SR
Score
DBD
Identity
IDD7
M06803_2.00
Arabidopsis thaliana
NDDTTTTGTCKTTTWBYD
HRVWAAAMGACAAAAHHN
Dap-seq
OMalley et al.(2016)
IDD7_col_a
0.794
0.930
IDD4
M06809_2.00
Arabidopsis thaliana
WWTTTTGTCKTTTWSYD
HRSWAAAMGACAAAAWW
Dap-seq
OMalley et al.(2016)
IDD4_col_a
0.794
0.884
MGP
M06795_2.00
Arabidopsis thaliana
HNHDWTTTTGTCKTTTWNYD
HRNWAAAMGACAAAAWHDND
Dap-seq
OMalley et al.(2016)
MGP_col_a
0.794
0.884
MGP
M06796_2.00
Arabidopsis thaliana
NNDTTTTGTCKTTTWBYD
HRVWAAAMGACAAAAHNN
Dap-seq
OMalley et al.(2016)
MGP_colamp_a
0.794
0.884
IDD5
M06807_2.00
Arabidopsis thaliana
DNTTTTGTCKTTTTSYD
HRSAAAAMGACAAAANH
Dap-seq
OMalley et al.(2016)
IDD5_colamp_a
0.788
0.907
IDD5
M06808_2.00
Arabidopsis thaliana
WTTTTGTCKTTTWSYD
HRSWAAAMGACAAAAW
Dap-seq
OMalley et al.(2016)
IDD5_col
0.788
0.907
AT1G14580
M06797_2.00
Arabidopsis thaliana
NNNWWTTTTGTCKTTTWSYD
HRSWAAAMGACAAAAWWNNN
Dap-seq
OMalley et al.(2016)
At1g14580_col_a
0.788
0.860
AT1G14580
M06798_2.00
Arabidopsis thaliana
NNTTTTGTCKTTTWSYD
HRSWAAAMGACAAAANN
Dap-seq
OMalley et al.(2016)
At1g14580_colamp_a
0.788
0.860
NUC
M06822_2.00
Arabidopsis thaliana
NNNNNTTTTGTCKTYTWBYD
HRVWARAMGACAAAANNNNN
Dap-seq
OMalley et al.(2016)
NUC_col_a
0.770
0.860
NUC
M06823_2.00
Arabidopsis thaliana
NDTTTTGTCGTYTWNYD
HRNWARACGACAAAAHN
Dap-seq
OMalley et al.(2016)
NUC_colamp_a
0.770
0.860
JKD
M06818_2.00
Arabidopsis thaliana
HHNWWTTTTGTCKTTTWBYD
HRVWAAAMGACAAAAWWNDD
Dap-seq
OMalley et al.(2016)
JKD_col_a
0.764
0.907
For this family, TFs with SR scores >
0.755
will likely have a similar motif
DNA Binding Domains
Protein ID
Domain
From
To
Sequence
AT5G66730.1
C2H2 ZF
137
158
WKCEKCSKKYAVQSDWKAHSKI
AT5G66730.1
C2H2 ZF
157
183
KICGTKEYKCDCGTLFSRRDSFITHRA
Links
Other
C2H2 ZF
family TFs
Other
Arabidopsis thaliana
TFs
669 Related TFs
Name
Species
Gene ID
Motif Evidence
SR
Score
Action
Invalid Input OrderBy