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PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
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Home TFext BLAST Prediction Download Help About Links PlantRegMap |
Transcription Factor Information
Basic Information? help Back to Top | |||||||||
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TF ID | Zpz_sc00197.1.g00150.1.am.mkhc | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Chloridoideae; Zoysieae; Zoysiinae; Zoysia
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Family | C3H | ||||||||
Protein Properties | Length: 697aa MW: 80333.5 Da PI: 7.8314 | ||||||||
Description | C3H 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-CCCH | 22.6 | 1.8e-07 | 179 | 198 | 6 | 25 |
-SGGGGTS--TTTTT-SS-S CS zf-CCCH 6 CrffartGtCkyGdrCkFaH 25 C+f+++tG C++G rC++ H Zpz_sc00197.1.g00150.1.am.mkhc 179 CPFHLKTGACRFGVRCSRVH 198 ******************99 PP | |||||||
2 | zf-CCCH | 24.3 | 5.6e-08 | 294 | 321 | 1 | 26 |
--S---SGGGGTS..--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartG..tCkyGdrCkFaHg 26 +k ++C ++r+ tC++G+ C+F+H+ Zpz_sc00197.1.g00150.1.am.mkhc 294 WKAAICGEYMRSRykTCSHGAACNFIHC 321 7889***********************8 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
PROSITE profile | PS50103 | 11.798 | 173 | 201 | IPR000571 | Zinc finger, CCCH-type |
SMART | SM00356 | 2.4 | 174 | 200 | IPR000571 | Zinc finger, CCCH-type |
Pfam | PF00642 | 1.6E-5 | 179 | 198 | IPR000571 | Zinc finger, CCCH-type |
PRINTS | PR01848 | 1.1E-18 | 179 | 198 | IPR009145 | U2 auxiliary factor small subunit |
Gene3D | G3DSA:3.30.70.330 | 1.8E-11 | 242 | 289 | IPR012677 | Nucleotide-binding alpha-beta plait domain |
SuperFamily | SSF54928 | 1.92E-9 | 248 | 289 | IPR012677 | Nucleotide-binding alpha-beta plait domain |
PRINTS | PR01848 | 1.1E-18 | 275 | 299 | IPR009145 | U2 auxiliary factor small subunit |
PROSITE profile | PS50103 | 10.756 | 293 | 323 | IPR000571 | Zinc finger, CCCH-type |
SMART | SM00356 | 0.03 | 293 | 322 | IPR000571 | Zinc finger, CCCH-type |
Pfam | PF00642 | 1.4E-5 | 294 | 321 | IPR000571 | Zinc finger, CCCH-type |
PRINTS | PR01848 | 1.1E-18 | 313 | 325 | IPR009145 | U2 auxiliary factor small subunit |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0000398 | Biological Process | mRNA splicing, via spliceosome | ||||
GO:0089701 | Cellular Component | U2AF | ||||
GO:0000166 | Molecular Function | nucleotide binding | ||||
GO:0003723 | Molecular Function | RNA binding | ||||
GO:0046872 | Molecular Function | metal ion binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 697 aa Download sequence Send to blast |
MSAPVAETAD GSGEAGPHAA ALATRREKLK ERKKERRRRA RREAAARARE AAEAEAAVDP 60 EEETRLLELE LAQAAEESDH ARQAFEEAER RWLEAAAARA AKRAAKAAEE EEARAAEASS 120 RHKDGDGNKL EEDDEWEYVE EGPAEIIWQG NEIIVKKKKV KVPKGVKEKL PTQEDKAHCP 180 FHLKTGACRF GVRCSRVHFY PDKSCTLLMK HMYNGPGLAL EQDEGLEAYN DPATWFHLIE 240 GVQTVDLNGS FHLRGNVYVH YKSLDSALLA YNSMNGRYFA GKQISCEFVA LTKWKAAICG 300 EYMRSRYKTC SHGAACNFIH CFRNPGGDYE WSDWDNPPPK YWIRKMTALF GLSADTNSLS 360 TTPDFECSQG SDRKRLKSSG DRYVSRRLKD EDGYKQRFCR DYSHSMEEHC SRSMKNEQSR 420 HRRDPHAVDK HRSREIEGNK GKYPQNGRES HRHLHEERYK SDHSGRVKGD DGKIRSRKNR 480 SNQQGYLEPR SSDWHSDYTD LSNSPSGRST SRYVDYKRRR QSSEDYNTGK HSSFVHRSSE 540 EEDRTKRHSS RYSEDDYYDK KNDYYDEKND GRGKTGKGGN HHDDSDDRWV ATNSDVDSDY 600 EIYQRSSSNS SNSERKDEAH SDAEARHQRS LMEAKDHKSS RRHSEHRQYR DTEEDTSYSD 660 TTDSSSDSWG RRSRSSEEKV SKHRSRRNID QSREKAE |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
4yh8_A | 2e-17 | 172 | 320 | 11 | 167 | Splicing factor U2AF 23 kDa subunit |
Search in ModeBase |
Nucleic Localization Signal ? help Back to Top | |||
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No. | Start | End | Sequence |
1 | 35 | 42 | RRRRARRE |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Zpz_sc00197.1.g00150.1.am.mkhc |
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 | BT023976 | 1e-112 | BT023976.1 Zea mays clone EL01N0356C06 mRNA sequence. | |||
GenBank | JF681144 | 1e-112 | JF681144.1 Zea mays RGH3 splicing factor mRNA, complete cds. | |||
GenBank | JN791417 | 1e-112 | JN791417.1 Zea mays rough endosperm 3-umu1 alpha isoform (Rgh3) mRNA, Rgh3-umu1 allele, complete cds, alternatively spliced. | |||
GenBank | JN791418 | 1e-112 | JN791418.1 Zea mays rough endosperm 3-umu1 gamma isoform (Rgh3) mRNA, Rgh3-umu1 allele, complete cds, alternatively spliced. | |||
GenBank | JN791419 | 1e-112 | JN791419.1 Zea mays rough endosperm 3 alpha isoform (Rgh3) mRNA, complete cds, alternatively spliced. | |||
GenBank | JN791420 | 1e-112 | JN791420.1 Zea mays rough endosperm 3 beta isoform 1 (Rgh3) mRNA, complete cds, alternatively spliced. | |||
GenBank | JN791423 | 1e-112 | JN791423.1 Zea mays rough endosperm 3 beta isoform 4 (Rgh3) mRNA, complete cds, alternatively spliced. | |||
GenBank | JN791424 | 1e-112 | JN791424.1 Zea mays rough endosperm 3 gamma isoform 1 (Rgh3) mRNA, complete cds, alternatively spliced. | |||
GenBank | JN791427 | 1e-112 | JN791427.1 Zea mays rough endosperm 3 gamma isoform 4 (Rgh3) mRNA, complete cds, alternatively spliced. | |||
GenBank | JN791428 | 1e-112 | JN791428.1 Zea mays rough endosperm 3 gamma isoform 5 (Rgh3) mRNA, complete cds, alternatively spliced. | |||
GenBank | JN791429 | 1e-112 | JN791429.1 Zea mays rough endosperm 3 gamma isoform 6 (Rgh3) mRNA, complete cds, alternatively spliced. | |||
GenBank | JN791430 | 1e-112 | JN791430.1 Zea mays rough endosperm 3 gamma isoform 7 (Rgh3) mRNA, complete cds, alternatively spliced. | |||
GenBank | JN791431 | 1e-112 | JN791431.1 Zea mays rough endosperm 3 gamma isoform 8 (Rgh3) mRNA, complete cds, alternatively spliced. | |||
GenBank | JN791432 | 1e-112 | JN791432.1 Zea mays rough endosperm 3 gamma isoform 9 (Rgh3) mRNA, complete cds, alternatively spliced. | |||
GenBank | JN791433 | 1e-112 | JN791433.1 Zea mays rough endosperm 3 delta isoform (Rgh3) mRNA, complete cds, alternatively spliced. | |||
GenBank | JN791434 | 1e-112 | JN791434.1 Zea mays rough endosperm 3 zeta isoform (Rgh3) mRNA, complete cds, alternatively spliced. | |||
GenBank | JN791435 | 1e-112 | JN791435.1 Zea mays rough endosperm 3 eta isoform (Rgh3) mRNA, complete cds, alternatively spliced. | |||
GenBank | JN791437 | 1e-112 | JN791437.1 Zea mays rough endosperm 3 (Rgh3) mRNA, complete sequence; alternatively spliced. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_002453991.2 | 0.0 | zinc finger CCCH domain-containing protein 16 isoform X2 | ||||
Swissprot | Q6YVX9 | 0.0 | C3H16_ORYSJ; Zinc finger CCCH domain-containing protein 16 | ||||
TrEMBL | A0A1D6HAP6 | 0.0 | A0A1D6HAP6_MAIZE; Rough endosperm3 | ||||
STRING | Pavir.Ab01939.1.p | 0.0 | (Panicum virgatum) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Monocots | OGMP9296 | 13 | 17 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT1G10320.1 | 4e-95 | C3H family protein |
Publications ? help Back to Top | |||
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