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 | GRMZM2G060057_P01 | ||||||||
Common Name | LOC107275235, Zm.64825 | ||||||||
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; Tripsacinae; Zea
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Family | LSD | ||||||||
Protein Properties | Length: 150aa MW: 15809.2 Da PI: 9.1755 | ||||||||
Description | LSD 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-LSD1 | 26 | 1.5e-08 | 7 | 30 | 1 | 24 |
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdt 24 C+gC+ l +Y rGA VRC++Cd+ GRMZM2G060057_P01 7 CSGCKRLVQYRRGAAGVRCPSCDA 30 ***********************8 PP | |||||||
2 | zf-LSD1 | 31.6 | 2.6e-10 | 86 | 109 | 1 | 24 |
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdt 24 Cg+Crt+L+YP+GA+ V C+ C GRMZM2G060057_P01 86 CGQCRTTLAYPPGATTVGCPTCRN 109 **********************85 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
TIGRFAMs | TIGR01053 | 1.6E-9 | 4 | 32 | IPR005735 | Zinc finger, LSD1-type |
Pfam | PF06943 | 2.2E-7 | 7 | 30 | IPR005735 | Zinc finger, LSD1-type |
TIGRFAMs | TIGR01053 | 3.2E-7 | 46 | 69 | IPR005735 | Zinc finger, LSD1-type |
Pfam | PF06943 | 1.7E-7 | 48 | 70 | IPR005735 | Zinc finger, LSD1-type |
Gene3D | G3DSA:3.30.40.10 | 7.6E-4 | 63 | 115 | IPR013083 | Zinc finger, RING/FYVE/PHD-type |
TIGRFAMs | TIGR01053 | 1.5E-8 | 83 | 112 | IPR005735 | Zinc finger, LSD1-type |
Pfam | PF06943 | 1.2E-9 | 86 | 110 | IPR005735 | Zinc finger, LSD1-type |
Plant Ontology ? help Back to Top | ||||||
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PO Term | PO Category | PO Description | ||||
PO:0006505 | anatomy | central spike of ear inflorescence | ||||
PO:0009001 | anatomy | fruit | ||||
PO:0009054 | anatomy | inflorescence bract | ||||
PO:0020127 | anatomy | primary root | ||||
PO:0020136 | anatomy | ear inflorescence | ||||
PO:0020142 | anatomy | stem internode | ||||
PO:0020148 | anatomy | shoot apical meristem | ||||
PO:0025287 | anatomy | seedling coleoptile | ||||
PO:0001083 | developmental stage | inflorescence development stage | ||||
PO:0001094 | developmental stage | plant embryo coleoptilar stage | ||||
PO:0001180 | developmental stage | plant proembryo stage | ||||
PO:0007001 | developmental stage | early whole plant fruit ripening stage | ||||
PO:0007015 | developmental stage | radicle emergence stage | ||||
PO:0007016 | developmental stage | whole plant flowering stage | ||||
PO:0007026 | developmental stage | FL.00 first flower(s) open stage | ||||
PO:0007032 | developmental stage | whole plant fruit formation stage up to 10% | ||||
PO:0007045 | developmental stage | coleoptile emergence stage | ||||
PO:0007063 | developmental stage | LP.07 seven leaves visible stage | ||||
PO:0007065 | developmental stage | LP.05 five leaves visible stage | ||||
PO:0007101 | developmental stage | LP.09 nine leaves visible stage | ||||
PO:0007106 | developmental stage | LP.03 three leaves visible stage | ||||
PO:0007112 | developmental stage | 1 main shoot growth stage | ||||
PO:0007116 | developmental stage | LP.11 eleven leaves visible stage | ||||
PO:0007123 | developmental stage | LP.06 six leaves visible stage | ||||
PO:0007633 | developmental stage | endosperm development stage | ||||
PO:0021004 | developmental stage | inflorescence initiation stage |
Sequence ? help Back to Top |
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Protein Sequence Length: 150 aa Download sequence Send to blast |
MHSHLACSGC KRLVQYRRGA AGVRCPSCDA FTAAANPSGP PEMSELVCGG CFTMLVHSRG 60 AANVRCPHCG RLNSTRSGNQ MGHLSCGQCR TTLAYPPGAT TVGCPTCRNV NPVRDARAAP 120 QTVLVENPRT LDEKGKLVSN VAVGVASWKR |
Expression -- Microarray ? help Back to Top | ||||||
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Source | ID | |||||
Expression Atlas | GRMZM2G060057 |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Putative zinc finger that may be involved in programmed cell death and defense response. {ECO:0000250}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | GRMZM2G060057_P01 |
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 | BT055540 | 0.0 | BT055540.2 Zea mays full-length cDNA clone ZM_BFc0071L11 mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | NP_001307436.1 | 1e-106 | uncharacterized protein LOC107275235 | ||||
Swissprot | Q84UR0 | 1e-70 | LOL4_ORYSJ; Protein LOL4 | ||||
TrEMBL | A0A1D6LEY8 | 1e-105 | A0A1D6LEY8_MAIZE; Protein LSD1 | ||||
TrEMBL | A0A3L6E707 | 1e-105 | A0A3L6E707_MAIZE; Protein LOL4 | ||||
STRING | GRMZM2G060057_P01 | 1e-106 | (Zea mays) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Monocots | OGMP12333 | 29 | 38 | Representative plant | OGRP1146 | 17 | 53 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT4G20380.7 | 5e-34 | LSD family protein |
Link Out ? help Back to Top | |
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Phytozome | GRMZM2G060057_P01 |
Entrez Gene | 107275235 |
Publications ? help Back to Top | |||
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