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 | Sobic.010G002900.1.p | ||||||||
Common Name | Sb10g000460, SORBIDRAFT_10g000460 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum
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Family | NAC | ||||||||
Protein Properties | Length: 340aa MW: 39234.9 Da PI: 6.8002 | ||||||||
Description | NAC 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 | NAM | 177.9 | 2.7e-55 | 14 | 148 | 1 | 129 |
NAM 1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpk......kvkaeekewyfFskrdkkyatgkrknratksgyW 83 +ppGfrFhPtdeelv++yL+kkv++++++l +vik+vd+yk+ePwdL++ ++e++ewyfFs++dkky+tg+r+nrat++g+W Sobic.010G002900.1.p 14 VPPGFRFHPTDEELVDYYLRKKVASRRIDL-NVIKDVDLYKIEPWDLQEkcrlggPGEEEQNEWYFFSHKDKKYPTGTRTNRATAAGFW 101 69****************************.99**************953655542233677*************************** PP NAM 84 katgkdkevlsk.kgelvglkktLvfykgrapkgektdWvmheyrle 129 katg+dk+++++ +++lvg++ktLv+ykgrap+g+k+dW+mheyrle Sobic.010G002900.1.p 102 KATGRDKPIYANkQRQLVGMRKTLVYYKGRAPNGHKSDWIMHEYRLE 148 **********9856777****************************85 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SuperFamily | SSF101941 | 1.14E-60 | 6 | 168 | IPR003441 | NAC domain |
PROSITE profile | PS51005 | 60.323 | 14 | 168 | IPR003441 | NAC domain |
Pfam | PF02365 | 1.4E-28 | 15 | 147 | IPR003441 | NAC domain |
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:0005634 | Cellular Component | nucleus | ||||
GO:0003677 | Molecular Function | DNA binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 340 aa Download sequence Send to blast |
MGMSSAQAQT QQLVPPGFRF HPTDEELVDY YLRKKVASRR IDLNVIKDVD LYKIEPWDLQ 60 EKCRLGGPGE EEQNEWYFFS HKDKKYPTGT RTNRATAAGF WKATGRDKPI YANKQRQLVG 120 MRKTLVYYKG RAPNGHKSDW IMHEYRLETN ENGPPQEEGW VVCRVFKKRL PTTRRESDHD 180 APCWYVDDDG TFMHDLNSPM SGLPPHHSIA QLQEQHLQML NNSYKRELKL QFQMPSHHIL 240 NAIPHELESP SFHSLLVSPD HQTKVQHAHQ HVQLMEHAVD QVTDWRVLDK FVASQLSNDA 300 AKGVDYTDEG DILQVNEKQE VATDYASTST SSSQVDPWK* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
1ut4_A | 5e-52 | 1 | 169 | 4 | 166 | NO APICAL MERISTEM PROTEIN |
1ut4_B | 5e-52 | 1 | 169 | 4 | 166 | NO APICAL MERISTEM PROTEIN |
1ut7_A | 5e-52 | 1 | 169 | 4 | 166 | NO APICAL MERISTEM PROTEIN |
1ut7_B | 5e-52 | 1 | 169 | 4 | 166 | NO APICAL MERISTEM PROTEIN |
3swm_A | 5e-52 | 1 | 169 | 7 | 169 | NAC domain-containing protein 19 |
3swm_B | 5e-52 | 1 | 169 | 7 | 169 | NAC domain-containing protein 19 |
3swm_C | 5e-52 | 1 | 169 | 7 | 169 | NAC domain-containing protein 19 |
3swm_D | 5e-52 | 1 | 169 | 7 | 169 | NAC domain-containing protein 19 |
3swp_A | 5e-52 | 1 | 169 | 7 | 169 | NAC domain-containing protein 19 |
3swp_B | 5e-52 | 1 | 169 | 7 | 169 | NAC domain-containing protein 19 |
3swp_C | 5e-52 | 1 | 169 | 7 | 169 | NAC domain-containing protein 19 |
3swp_D | 5e-52 | 1 | 169 | 7 | 169 | NAC domain-containing protein 19 |
4dul_A | 5e-52 | 1 | 169 | 4 | 166 | NAC domain-containing protein 19 |
4dul_B | 5e-52 | 1 | 169 | 4 | 166 | NAC domain-containing protein 19 |
Search in ModeBase |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | DEVELOPMENTAL STAGE: Up-regulated during xylem vessel element formation. Expressed preferentially in procambial cells adjacent to root meristem. {ECO:0000269|PubMed:16103214, ECO:0000269|PubMed:25148240}. | |||||
Uniprot | TISSUE SPECIFICITY: Expressed in root, shoot and hypocotyl vascular elements, columella root caps, epidermal and cortex root cells and root-hypocotyl junctions. Observed predominantly in root imature xylem vessels (PubMed:18445131). Present in root developing xylems (PubMed:16103214, PubMed:17565617). Specifically expressed in vessels in the secondary xylem of the root-hypocotyl region, and in vessels but not in interfascicular fibers in stems (PubMed:25148240). {ECO:0000269|PubMed:16103214, ECO:0000269|PubMed:17565617, ECO:0000269|PubMed:18445131, ECO:0000269|PubMed:25148240}. |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Transcription activator that binds to the secondary wall NAC binding element (SNBE), 5'-(T/A)NN(C/T)(T/C/G)TNNNNNNNA(A/C)GN(A/C/T)(A/T)-3', in the promoter of target genes (By similarity). Involved in xylem formation by promoting the expression of secondary wall-associated transcription factors and of genes involved in secondary wall biosynthesis and programmed cell death, genes driven by the secondary wall NAC binding element (SNBE). Triggers thickening of secondary walls (PubMed:16103214, PubMed:25148240). {ECO:0000250|UniProtKB:Q9LVA1, ECO:0000269|PubMed:16103214, ECO:0000269|PubMed:25148240}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Sobic.010G002900.1.p |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | - |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | KT075091 | 0.0 | KT075091.1 Panicum virgatum secondary wall NAC master switch (SWN7B) mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_002437668.1 | 0.0 | NAC domain-containing protein 7 | ||||
Refseq | XP_021305296.1 | 0.0 | NAC domain-containing protein 7 | ||||
Refseq | XP_021305297.1 | 0.0 | NAC domain-containing protein 7 | ||||
Refseq | XP_021305298.1 | 0.0 | NAC domain-containing protein 7 | ||||
Swissprot | Q9FWX2 | 1e-110 | NAC7_ARATH; NAC domain-containing protein 7 | ||||
TrEMBL | C5Z239 | 0.0 | C5Z239_SORBI; Uncharacterized protein | ||||
STRING | Sb10g000460.1 | 0.0 | (Sorghum bicolor) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Monocots | OGMP12102 | 30 | 39 | Representative plant | OGRP17 | 15 | 800 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT1G12260.1 | 2e-99 | NAC 007 |
Link Out ? help Back to Top | |
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Phytozome | Sobic.010G002900.1.p |
Entrez Gene | 8067880 |
Publications ? help Back to Top | |||
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