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 | Glyma.19G234500.1.p | ||||||||
Common Name | GLYMA_19G234500, LOC100806469 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Glycine; Soja
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Family | C2H2 | ||||||||
Protein Properties | Length: 508aa MW: 54935.4 Da PI: 8.5414 | ||||||||
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 | 16.1 | 3.1e-05 | 95 | 117 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C++C+k F r nL+ H r H Glyma.19G234500.1.p 95 FICEICNKGFQRDQNLQLHRRGH 117 89*******************88 PP | |||||||
2 | zf-C2H2 | 11.9 | 0.00072 | 171 | 193 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k + +s+ k H + + Glyma.19G234500.1.p 171 WKCEKCSKKYAVQSDWKAHSKIC 193 58*****************9876 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
Gene3D | G3DSA:3.30.160.60 | 1.3E-5 | 94 | 117 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 1.31E-6 | 94 | 117 | No hit | No description |
SMART | SM00355 | 0.022 | 95 | 117 | IPR015880 | Zinc finger, C2H2-like |
Pfam | PF12171 | 6.1E-5 | 95 | 117 | IPR022755 | Zinc finger, double-stranded RNA binding |
PROSITE profile | PS50157 | 10.845 | 95 | 117 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS00028 | 0 | 97 | 117 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 96 | 136 | 166 | IPR015880 | Zinc finger, C2H2-like |
Gene3D | G3DSA:3.30.160.60 | 3.9E-4 | 159 | 192 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 1.31E-6 | 166 | 191 | No hit | No description |
SMART | SM00355 | 140 | 171 | 191 | 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: 508 aa Download sequence Send to blast |
MSNSNITSCD SWSFTTENNN NGEDAAATVK QQLEMLGQLY SPNSNTSTTT NNSNGGSNAD 60 SQPPAKKKRN LPGNPDPSAE VIALSPNTLV ATNRFICEIC NKGFQRDQNL QLHRRGHNLP 120 WKLKLRTTTE VRKRVYVCPE PSCVHHNPAR ALGDLTGIKK HFSRKHGDKK WKCEKCSKKY 180 AVQSDWKAHS KICGTKEYKC DCGTIFSRRD SFVTHRAFCD ALSEENNKCN EVPKMHGSNL 240 QPPIIPNIVA SLPIINANNH KNPFSLPHDL MTTIPAKPFN NMAAAFTRSL SSTSSPSQLS 300 SNSPNINMLV ENGLLSPHMS ATALLQKAAQ MGATVNSNNN SMMSSDEKSF IVTSMAPPSY 360 GIMNHNMHNG QQDLSQYNFN ANGMVDGGSN NGMGMGGLDM FNAILDQSKA LSKIIEQNNR 420 NSTYNGVLHA MNNGKSSDPI EGGGTKGSEA VNHVMTLDLL GIGGGGGDGN FYGGDQQSEI 480 AAGDGIWRNW SNKNAGLESF SATNSTM* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5b3h_C | 3e-33 | 167 | 225 | 3 | 61 | Zinc finger protein JACKDAW |
5b3h_F | 3e-33 | 167 | 225 | 3 | 61 | Zinc finger protein JACKDAW |
Search in ModeBase |
Expression -- UniGene ? help Back to Top | ||||||
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UniGene ID | E-value | Expressed in | ||||
Gma.62127 | 0.0 | cotyledon| leaf| pod |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | DEVELOPMENTAL STAGE: Expressed throughout development. {ECO:0000269|PubMed:21265895}. | |||||
Uniprot | TISSUE SPECIFICITY: Highly expressed in vegetative organs and at lower levels in flowers and siliques. Expressed predominantly in roots. In roots, present in cortex, endodermis, and pericycle layer (PubMed:25829440). {ECO:0000269|PubMed:21265895, ECO:0000269|PubMed:25829440, ECO:0000305|PubMed:21265895}. |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Transcription activator that binds to the DNA sequence 5'-CTTTTGTCC-3' (PubMed:21265895, PubMed:25929516). Regulates photoperiodic flowering by modulating sugar transport and metabolism (PubMed:21265895, PubMed:25929516). Regulates SUS1 and SUS4 (PubMed:21265895). Transcription factor that regulates tissue boundaries and asymmetric cell division (PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:25829440). {ECO:0000269|PubMed:21265895, ECO:0000269|PubMed:25829440, ECO:0000269|PubMed:25929516}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Glyma.19G234500.1.p |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: Up-regulated by 'SHORT-ROOT' (SHR)(PubMed:16640459). Strongly down-regulated by sugar deprivation, but not regulated by day-length. {ECO:0000269|PubMed:16640459}. |
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_003553722.1 | 0.0 | protein indeterminate-domain 12 | ||||
Refseq | XP_028216112.1 | 0.0 | protein indeterminate-domain 12-like | ||||
Swissprot | Q9FFH3 | 1e-107 | IDD8_ARATH; Zinc finger protein NUTCRACKER | ||||
TrEMBL | A0A445FKQ6 | 0.0 | A0A445FKQ6_GLYSO; Zinc finger protein NUTCRACKER isoform A | ||||
TrEMBL | I1NBY8 | 0.0 | I1NBY8_SOYBN; Uncharacterized protein | ||||
STRING | GLYMA19G42280.1 | 0.0 | (Glycine max) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Fabids | OGEF2192 | 30 | 85 | Representative plant | OGRP95 | 16 | 242 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT1G03840.1 | 2e-97 | C2H2 family protein |
Link Out ? help Back to Top | |
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Phytozome | Glyma.19G234500.1.p |
Entrez Gene | 100806469 |
Publications ? help Back to Top | |||
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