PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID orange1.1g003027m
Common NameCISIN_1g002708mg
Organism
Citrus sinensis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus
Family B3
Protein Properties Length: 857aa    MW: 94223.1 Da    PI: 7.1423
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
orange1.1g003027mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B358.61.1e-18267367199
                        EEEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
                 B3   1 ffkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                        f+kvl+ sd+++ grlvlpk +ae++   ++++e+  l+++d +g++W +++++  +++s++yvl+ G     ++ +L++gD+v+F++++  
  orange1.1g003027m 267 FEKVLSASDAGRIGRLVLPKACAEAYfpPISQPEGLPLRIQDVKGKEWVFQFRFwpNNNSRMYVLE-GVTPCIQSMQLQAGDTVTFSRMD-P 356
                        99**************************555567778***************9989999999***9.********************876.7 PP

                        EE..EEEEE-S CS
                 B3  89 efelvvkvfrk 99 
                        e++lv++++++
  orange1.1g003027m 357 EGKLVMGFRKA 367
                        77788877765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.103.1E-30259370IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019367.72E-20264366IPR015300DNA-binding pseudobarrel domain
CDDcd100179.08E-23265366No hitNo description
PfamPF023623.5E-16267367IPR003340B3 DNA binding domain
PROSITE profilePS5086311.152267368IPR003340B3 DNA binding domain
SMARTSM010195.0E-21267368IPR003340B3 DNA binding domain
PROSITE profilePS5105013.603532582IPR011124Zinc finger, CW-type
PfamPF074964.3E-10537579IPR011124Zinc finger, CW-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010030Biological Processpositive regulation of seed germination
GO:2000034Biological Processregulation of seed maturation
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 857 aa     Download sequence    Send to blast
MESRTCMNGK CRASSSIEWR KGWPLQSGGF AVLCDKCGSA FEKLIFCDEF HSKDSGWRKC  60
ASCSKIPGDD PNGFGTLKTD NAGDLPSTSV DNQLGGSDDK FKLLQLGNSS ESVGLRHLLQ  120
FRNDDLDGSF RKVKPEEAAK SDISKANIGA KDIYGPLAHT NLSITLGSPG INSNSFPSAV  180
VDEKEHSKTS AIIHQGPKSR HLLPKPPKLA LATGSEANAG ISQIRVARPP AEGRGRNQLL  240
PRYWPRITDQ ELQQLSGDSN STIVPLFEKV LSASDAGRIG RLVLPKACAE AYFPPISQPE  300
GLPLRIQDVK GKEWVFQFRF WPNNNSRMYV LEGVTPCIQS MQLQAGDTVT FSRMDPEGKL  360
VMGFRKASNA VSVQDTQPSA IPNGGHSSES FFSGVFENLS ILSGYSGVLQ SLKGSTDPHL  420
SALSKQLNSP PGDINWVKSE KHEDKTREGL LPPSMLVPER KRSRNIGSKR KRLLIDRLDV  480
LELKLTWEEA QDMLYPPPSV MPSIVTVEDH VFEEYEDPPV FGKRSIFIVR TSGGQEQWAQ  540
CDGCSKWRRL PVDVLLPPKW TCMDNVWDHN RCSCSAPDEL TPREVENLLR LNKDFKKRKI  600
ATSHRLNQEH EPSGLDALSN AAILGENMGD PGTASVATTT KHPRHRPGCS CIVCIQPPSG  660
KGKHKPTCTC LVCMTVKRRF KTLMMRKKKR QSEREEEVAQ RNQPTWGPKE EAEVDSSSKH  720
VSSHLDPSEN EARSANELES KSQNNNLSGK LAESSKAELD LNCHPDREEV QAGLNRVSMM  780
KLLQVASHPL ETYLKQNGLT SLTSDQQASS GTHAPPQAAG ESEGQLNELA SATQERESGG  840
EDNCEPVSDQ IPDDPE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6j9a_A2e-692453742131B3 domain-containing transcription repressor VAL1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1676687KRRFKTLMMRKK
2676689KRRFKTLMMRKKKR
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Csi.52130.0callus| seed
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional repressor of gene expression involved in embryonic pathways, such as LEC1, ABI3, and FUS3. Repressor of the sugar-inducible genes involved in the seed maturation program in seedlings. Plays an essential role in regulating the transition from seed maturation to seedling growth. Functionally redundant with VAL1/HSI2. {ECO:0000269|PubMed:17158584, ECO:0000269|PubMed:17267611}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006481192.10.0B3 domain-containing transcription repressor VAL2 isoform X2
RefseqXP_024037448.10.0B3 domain-containing transcription repressor VAL2 isoform X2
SwissprotQ5CCK40.0VAL2_ARATH; B3 domain-containing transcription repressor VAL2
TrEMBLA0A067F9M70.0A0A067F9M7_CITSI; Uncharacterized protein
STRINGXP_006481189.10.0(Citrus sinensis)
STRINGXP_006429577.10.0(Citrus clementina)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G32010.10.0HSI2-like 1
Publications ? help Back to Top
  1. Jia H,McCarty DR,Suzuki M
    Distinct roles of LAFL network genes in promoting the embryonic seedling fate in the absence of VAL repression.
    Plant Physiol., 2013. 163(3): p. 1293-305
    [PMID:24043445]
  2. Chhun T, et al.
    HSI2 Repressor Recruits MED13 and HDA6 to Down-Regulate Seed Maturation Gene Expression Directly During Arabidopsis Early Seedling Growth.
    Plant Cell Physiol., 2016. 57(8): p. 1689-706
    [PMID:27335347]
  3. Yuan W, et al.
    A cis cold memory element and a trans epigenome reader mediate Polycomb silencing of FLC by vernalization in Arabidopsis.
    Nat. Genet., 2016. 48(12): p. 1527-1534
    [PMID:27819666]
  4. Li C,Cui Y
    A DNA element that remembers winter.
    Nat. Genet., 2016. 48(12): p. 1451-1452
    [PMID:27898079]