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_Os12g29520.2 | ||||||||
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: 842aa MW: 92307.3 Da PI: 6.7683 | ||||||||
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 | 75.4 | 6.5e-24 | 148 | 249 | 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_Os12g29520.2 148 FCKTLTASDTSTHGGFSVLRRHADEClppldmsQ--HPPTQELVAKDLHGVEWRFRHIFRGQPRRHLLQSGWSVFVSAKRLVAGDAFIFL--R 236 99*****************************544..455569************************************************..4 PP SSEE..EEEEE-S CS B3 87 rsefelvvkvfrk 99 +++el+v+v+r+ LOC_Os12g29520.2 237 GENGELRVGVRRA 249 49999*****996 PP | |||||||
2 | Auxin_resp | 111.8 | 6.9e-37 | 274 | 356 | 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_Os12g29520.2 274 AWHAVNTGTMFTVYYKPRTSPSEFVVPRDLYKESLKRNHSIGMRFKMTFEGEEAAEQRFTGTIVGVGDSDPSGWADSKWRSLK 356 89*******************************************************************************96 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SuperFamily | SSF101936 | 2.94E-41 | 141 | 277 | IPR015300 | DNA-binding pseudobarrel domain |
Gene3D | G3DSA:2.40.330.10 | 2.8E-42 | 141 | 263 | IPR015300 | DNA-binding pseudobarrel domain |
CDD | cd10017 | 7.08E-22 | 146 | 248 | No hit | No description |
SMART | SM01019 | 9.8E-24 | 148 | 250 | IPR003340 | B3 DNA binding domain |
Pfam | PF02362 | 8.3E-22 | 148 | 249 | IPR003340 | B3 DNA binding domain |
PROSITE profile | PS50863 | 11.899 | 148 | 250 | IPR003340 | B3 DNA binding domain |
Pfam | PF06507 | 3.3E-34 | 274 | 356 | IPR010525 | Auxin response factor |
Pfam | PF02309 | 1.2E-11 | 701 | 798 | IPR033389 | AUX/IAA domain |
PROSITE profile | PS51745 | 23.837 | 713 | 797 | IPR000270 | PB1 domain |
SuperFamily | SSF54277 | 5.89E-12 | 715 | 789 | 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: 842 aa Download sequence Send to blast |
MAAAATAAAS PVEGLTGGGG GGGGGVDGLF VELWRACAGP LVTVPAVGER VFYLPQGHIE 60 QVEASTNQVA EQQGAPLYNL PWKIPCKVMN VELKAEPDTD EVYAQLTLLP EKQQDGNGSG 120 NGNVSKDKVE EEEVVPPAAT ERPRVHSFCK TLTASDTSTH GGFSVLRRHA DECLPPLDMS 180 QHPPTQELVA KDLHGVEWRF RHIFRGQPRR HLLQSGWSVF VSAKRLVAGD AFIFLRGENG 240 ELRVGVRRAM RQQANIPSSV ISSHSMHLGV LATAWHAVNT GTMFTVYYKP RTSPSEFVVP 300 RDLYKESLKR NHSIGMRFKM TFEGEEAAEQ RFTGTIVGVG DSDPSGWADS KWRSLKVRWD 360 EAASVPRPDR VSPWQIEPAN SPSPVNPLPA PRTKRARPNV LASSPDLSAV NKEVASKVMA 420 NSQQNGLPRA FHSQENMNLR SRFGDSNELN TSQKLTMWSS GSNQEKNNVS VQRELGSQSW 480 MQMRRPDGSS EILSGFQPLK DTRNPLSSFP SQISGNRSNT WNTINVHYPD QNANHNMYPG 540 TWSLMPPNTG FGVNQQNYLM TPDITLPQRS LNAKFGGNGA FTSLRAHGID QRSSGWLGHI 600 EPSSHIDDAS SSLIKPQPLV IDHNVQKAKG SSCMLFGISL DSPAKPELLI SPPSVAFDGK 660 LQQDALEEDE CSDPSKTVKP LDGAQHDSAR EKHQSCPDGT KNIQSKQQNG SSRSCKKVHK 720 QGIALGRSID LTKFTCYDEL IAELDQMFDF NGELNSSSKN WMVVYTDNEG DMMLVGDDPW 780 NEFCNMVHKI FIYTREEVQK MNPGALNSRS EDSRSTSVER GLVGEGLQGG LSTPSLNSEN 840 C* |
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-169 | 19 | 383 | 9 | 359 | Auxin response factor 1 |
4ldw_A | 1e-169 | 19 | 383 | 9 | 359 | Auxin response factor 1 |
4ldw_B | 1e-169 | 19 | 383 | 9 | 359 | Auxin response factor 1 |
4ldx_A | 1e-170 | 19 | 383 | 9 | 359 | Auxin response factor 1 |
4ldx_B | 1e-170 | 19 | 383 | 9 | 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_Os12g29520.2 |
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_Os12g29520.2 |
Entrez Gene | 4352211 |
Publications ? help Back to Top | |||
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