PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
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Transcription Factor Information
Basic Information? help Back to Top | |||||||||
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TF ID | LOC_Os12g29520.5 | ||||||||
Common Name | ARF24, LOC4352211, Os12g0479400 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
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Family | ARF | ||||||||
Protein Properties | Length: 754aa MW: 83464.2 Da PI: 7.0061 | ||||||||
Description | ARF family protein | ||||||||
Gene Model |
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Signature Domain? help Back to Top | |||||||
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No. | Domain | Score | E-value | Start | End | HMM Start | HMM End |
1 | B3 | 75.6 | 5.5e-24 | 60 | 161 | 1 | 99 |
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldg 86 f+k+lt sd++++g +++ +++a+e+ + ++ +++l+ +d++g +W++++i+r++++r++l++GW+ Fv+a++L +gD ++F + LOC_Os12g29520.5 60 FCKTLTASDTSTHGGFSVLRRHADEClppldmsQ--HPPTQELVAKDLHGVEWRFRHIFRGQPRRHLLQSGWSVFVSAKRLVAGDAFIFL--R 148 99*****************************544..455569************************************************..4 PP SSEE..EEEEE-S CS B3 87 rsefelvvkvfrk 99 +++el+v+v+r+ LOC_Os12g29520.5 149 GENGELRVGVRRA 161 49999*****996 PP | |||||||
2 | Auxin_resp | 112 | 5.9e-37 | 186 | 268 | 1 | 83 |
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 a+ha++t+++F+v+Y+Pr+s+seFvv+++ ++++lk++ s+GmRfkm fe+e+++e+r++Gt+vgv d+dp+ W +SkWrsLk LOC_Os12g29520.5 186 AWHAVNTGTMFTVYYKPRTSPSEFVVPRDLYKESLKRNHSIGMRFKMTFEGEEAAEQRFTGTIVGVGDSDPSGWADSKWRSLK 268 89*******************************************************************************96 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
Gene3D | G3DSA:2.40.330.10 | 2.3E-42 | 53 | 175 | IPR015300 | DNA-binding pseudobarrel domain |
SuperFamily | SSF101936 | 2.45E-41 | 53 | 189 | IPR015300 | DNA-binding pseudobarrel domain |
CDD | cd10017 | 5.65E-22 | 58 | 160 | No hit | No description |
PROSITE profile | PS50863 | 11.899 | 60 | 162 | IPR003340 | B3 DNA binding domain |
Pfam | PF02362 | 7.1E-22 | 60 | 161 | IPR003340 | B3 DNA binding domain |
SMART | SM01019 | 9.8E-24 | 60 | 162 | IPR003340 | B3 DNA binding domain |
Pfam | PF06507 | 2.8E-34 | 186 | 268 | IPR010525 | Auxin response factor |
Pfam | PF02309 | 1.1E-11 | 613 | 710 | IPR033389 | AUX/IAA domain |
PROSITE profile | PS51745 | 23.837 | 625 | 709 | IPR000270 | PB1 domain |
SuperFamily | SSF54277 | 4.91E-12 | 627 | 701 | No hit | No description |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0006355 | Biological Process | regulation of transcription, DNA-templated | ||||
GO:0009734 | Biological Process | auxin-activated signaling pathway | ||||
GO:0005634 | Cellular Component | nucleus | ||||
GO:0003677 | Molecular Function | DNA binding | ||||
GO:0005515 | Molecular Function | protein binding |
Plant Ontology ? help Back to Top | ||||||
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PO Term | PO Category | PO Description | ||||
PO:0009009 | anatomy | plant embryo | ||||
PO:0001081 | developmental stage | mature plant embryo stage | ||||
PO:0007042 | developmental stage | whole plant fruit formation stage |
Sequence ? help Back to Top |
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Protein Sequence Length: 754 aa Download sequence Send to blast |
MNVELKAEPD TDEVYAQLTL LPEKQQDGNG SGNGNVSKDK VEEEEVVPPA ATERPRVHSF 60 CKTLTASDTS THGGFSVLRR HADECLPPLD MSQHPPTQEL VAKDLHGVEW RFRHIFRGQP 120 RRHLLQSGWS VFVSAKRLVA GDAFIFLRGE NGELRVGVRR AMRQQANIPS SVISSHSMHL 180 GVLATAWHAV NTGTMFTVYY KPRTSPSEFV VPRDLYKESL KRNHSIGMRF KMTFEGEEAA 240 EQRFTGTIVG VGDSDPSGWA DSKWRSLKVR WDEAASVPRP DRVSPWQIEP ANSPSPVNPL 300 PAPRTKRARP NVLASSPDLS AVNKEVASKV MANSQQNGLP RAFHSQENMN LRSRFGDSNE 360 LNTSQKLTMW SSGSNQEKNN VSVQRELGSQ SWMQMRRPDG SSEILSGFQP LKDTRNPLSS 420 FPSQISGNRS NTWNTINVHY PDQNANHNMY PGTWSLMPPN TGFGVNQQNY LMTPDITLPQ 480 RSLNAKFGGN GAFTSLRAHG IDQRSSGWLG HIEPSSHIDD ASSSLIKPQP LVIDHNVQKA 540 KGSSCMLFGI SLDSPAKPEL LISPPSVAFD GKLQQDALEE DECSDPSKTV KPLDGAQHDS 600 AREKHQSCPD GTKNIQSKQQ NGSSRSCKKV HKQGIALGRS IDLTKFTCYD ELIAELDQMF 660 DFNGELNSSS KNWMVVYTDN EGDMMLVGDD PWNEFCNMVH KIFIYTREEV QKMNPGALNS 720 RSEDSRSTSV ERGLVGEGLQ GGLSTPSLNS ENC* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
4ldv_A | 1e-138 | 1 | 295 | 78 | 359 | Auxin response factor 1 |
4ldw_A | 1e-138 | 1 | 295 | 78 | 359 | Auxin response factor 1 |
4ldw_B | 1e-138 | 1 | 295 | 78 | 359 | Auxin response factor 1 |
4ldx_A | 1e-138 | 1 | 295 | 78 | 359 | Auxin response factor 1 |
4ldx_B | 1e-138 | 1 | 295 | 78 | 359 | Auxin response factor 1 |
Search in ModeBase |
Expression -- UniGene ? help Back to Top | ||||||
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UniGene ID | E-value | Expressed in | ||||
Os.18308 | 0.0 | callus| flower| leaf| panicle| root| seed| stem |
Expression -- Microarray ? help Back to Top | ||||||
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Source | ID | E-value | ||||
GEO | 32977079 | 0.0 | ||||
Expression Atlas | Q2QQX6 | - |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | TISSUE SPECIFICITY: Expressed in roots, culms, leaves and young panicles. {ECO:0000269|PubMed:17408882}. |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Auxin response factors (ARFs) are transcriptional factors that bind specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs). |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | LOC_Os12g29520.5 |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | - |
Phenotype -- Mutation ? help Back to Top | ||||||
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Source | ID | |||||
RiceGE | Os12g29520 |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | AK065254 | 0.0 | AK065254.1 Oryza sativa Japonica Group cDNA clone:J013002J11, full insert sequence. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_015620411.1 | 0.0 | auxin response factor 24 isoform X1 | ||||
Refseq | XP_015620412.1 | 0.0 | auxin response factor 24 isoform X1 | ||||
Swissprot | Q2QQX6 | 0.0 | ARFX_ORYSJ; Auxin response factor 24 | ||||
TrEMBL | I1R6D5 | 0.0 | I1R6D5_ORYGL; Auxin response factor | ||||
STRING | OS12T0479400-02 | 0.0 | (Oryza sativa) |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT5G62000.3 | 0.0 | auxin response factor 2 |
Link Out ? help Back to Top | |
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Phytozome | LOC_Os12g29520.5 |
Entrez Gene | 4352211 |
Publications ? help Back to Top | |||
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