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 | orange1.1g011146m | ||||||||
Common Name | CISIN_1g011146mg, LOC102611525 | ||||||||
Organism | |||||||||
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
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Family | C2H2 | ||||||||
Protein Properties | Length: 493aa MW: 54426 Da PI: 9.8578 | ||||||||
Description | C2H2 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 | zf-C2H2 | 14.1 | 0.00014 | 66 | 86 | 3 | 23 |
ETTTTEEESSHHHHHHHHHHT CS zf-C2H2 3 CpdCgksFsrksnLkrHirtH 23 C++C+k F r nL+ H r H orange1.1g011146m 66 CEICNKGFQRDQNLQLHRRGH 86 *******************88 PP | |||||||
2 | zf-C2H2 | 11.9 | 0.00069 | 140 | 162 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k + +s+ k H + + orange1.1g011146m 140 WKCEKCSKKYAVQSDWKAHSKIC 162 58*****************9876 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SuperFamily | SSF57667 | 4.78E-7 | 63 | 86 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 2.3E-5 | 63 | 86 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SMART | SM00355 | 0.11 | 64 | 86 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 10.824 | 64 | 86 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS00028 | 0 | 66 | 86 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 110 | 105 | 135 | IPR015880 | Zinc finger, C2H2-like |
Gene3D | G3DSA:3.30.160.60 | 1.5E-4 | 128 | 161 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 4.78E-7 | 135 | 160 | No hit | No description |
SMART | SM00355 | 140 | 140 | 160 | IPR015880 | Zinc finger, C2H2-like |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0003676 | Molecular Function | nucleic acid binding | ||||
GO:0046872 | Molecular Function | metal ion binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 493 aa Download sequence Send to blast |
MMSQDHGLSV PSTLKGFVQE PNSNPNPNPS SNQLKRKRNL PGTPDPDAEV IALSPKSLMA 60 TNRFLCEICN KGFQRDQNLQ LHRRGHNLPW KLKQRTNKEV RKKVYICPEK SCVHHDPSRA 120 LGDLTGIKKH FSRKHGEKKW KCEKCSKKYA VQSDWKAHSK ICGTREYRCD CGTLFSRKDS 180 FITHRAFCDA LAEESARFTT ISSTNPQAAA AIPQFSSVFR QQQQSAPGSE LAGNNVIADG 240 QKPRLPLWLD QANNSNAMLT PIGSSSTGLP ELSQMVSPMN MFGSLSQMQW FSGGANLSMS 300 SSSSLPRGIP KEEEENKAYN LSESMTSLYP SNQSGQQQQQ QQQQQQQGLA HMSATALLQK 360 AAQMGSTRSN ANNSTGFGLM STSFNSFNQT DKNELHKFFK QPNQQVADND QNLNELIMNS 420 FSCPTNMGAV AGSSNASLLM ANAKNASNEA ERRLTRDFLG VGVESSRPLS QQELAKFMNL 480 SSQYGGNPHH RS* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5b3h_C | 6e-38 | 136 | 205 | 3 | 72 | Zinc finger protein JACKDAW |
5b3h_F | 6e-38 | 136 | 205 | 3 | 72 | Zinc finger protein JACKDAW |
Search in ModeBase |
Nucleic Localization Signal ? help Back to Top | |||
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No. | Start | End | Sequence |
1 | 90 | 102 | KLKQRTNKEVRKK |
Expression -- UniGene ? help Back to Top | ||||||
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UniGene ID | E-value | Expressed in | ||||
Csi.919 | 0.0 | callus| flower| fruit| stem |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | DEVELOPMENTAL STAGE: Start to accumulate during the 16- to 32-cell stage of embryogenesis. {ECO:0000269|PubMed:17785527}. | |||||
Uniprot | TISSUE SPECIFICITY: Expressed in the quiescent center, the ground tissue stem cells and to a lesser extent in mature cortex and endodermis cells. {ECO:0000269|PubMed:17785527}. |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Transcription factor that, together with BIB, regulates tissue boundaries and asymmetric cell division by a rapid up-regulation of 'SCARECROW' (SCR), thus controlling the nuclear localization of 'SHORT-ROOT' (SHR) and restricting its action (PubMed:17785527, PubMed:25829440). Binds DNA via its zinc fingers (PubMed:28211915, PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). Confines CYCD6 expression to the cortex-endodermis initial/daughter (CEI/CEID) tissues (PubMed:25829440). Required for radial patterning and stem cell maintenance (PubMed:17785527). Counteracted by 'MAGPIE' (MGP) (PubMed:17785527). Binds to the SCR and MGP promoter sequences (PubMed:21935722). Controls position-dependent signals that regulate epidermal-cell-type patterning (PubMed:20356954). {ECO:0000269|PubMed:17785527, ECO:0000269|PubMed:20356954, ECO:0000269|PubMed:21935722, ECO:0000269|PubMed:24821766, ECO:0000269|PubMed:25829440, ECO:0000269|PubMed:28211915}. |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: Not regulated by SCR and SHR. {ECO:0000269|PubMed:21935722}. |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | - |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_006424606.1 | 0.0 | protein indeterminate-domain 9 | ||||
Refseq | XP_006488129.1 | 0.0 | protein indeterminate-domain 9 isoform X2 | ||||
Swissprot | Q700D2 | 1e-122 | IDD10_ARATH; Zinc finger protein JACKDAW | ||||
TrEMBL | A0A067GD07 | 0.0 | A0A067GD07_CITSI; Uncharacterized protein | ||||
TrEMBL | V4SLB1 | 0.0 | V4SLB1_9ROSI; Uncharacterized protein | ||||
STRING | XP_006488129.1 | 0.0 | (Citrus sinensis) | ||||
STRING | XP_006424606.1 | 0.0 | (Citrus clementina) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM155 | 28 | 306 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT3G45260.1 | 1e-109 | C2H2-like zinc finger protein |
Link Out ? help Back to Top | |
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Phytozome | orange1.1g011146m |
Entrez Gene | 102611525 |
Publications ? help Back to Top | |||
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