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Plant Transcription
Factor Database
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Transcription Factor Information
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Basic
Information? help
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| TF ID |
Solyc10g038000.1.1 |
| Common Name | LOC101259296 |
| Organism |
|
| Taxonomic ID |
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| Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon
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| Family |
C3H |
| Protein Properties |
Length: 361aa MW: 40524.7 Da PI: 7.3694 |
| Description |
C3H family protein |
| Gene Model |
| Gene Model ID |
Type |
Source |
Coding Sequence |
| Solyc10g038000.1.1 | genome | ITAG | View CDS |
|
| Signature Domain? help Back to Top |
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| No. |
Domain |
Score |
E-value |
Start |
End |
HMM Start |
HMM End |
| 1 | zf-CCCH | 18.5 | 3.7e-06 | 4 | 26 | 3 | 26 |
S---SGGGGTS--TTTTT-SS-SS CS
zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26
++lC+ffa G C Gd C F+H+
Solyc10g038000.1.1 4 RVLCKFFAH-GACLKGDHCEFSHD 26
89***6666.*************5 PP
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| 2 | zf-CCCH | 27.6 | 5e-09 | 34 | 54 | 5 | 26 |
--SGGGGTS--TTTTT-SS-SS CS
zf-CCCH 5 lCrffartGtCkyGdrCkFaHg 26
C ++++ G C yG+rC++ H+
Solyc10g038000.1.1 34 VCTYYQK-GACAYGSRCRYDHV 54
6******.*************7 PP
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| 3 | zf-CCCH | 21.5 | 4.2e-07 | 142 | 164 | 3 | 26 |
S---SGGGGTS--TTTTT-SS-SS CS
zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26
+++C fa+ G C++G++C++ Hg
Solyc10g038000.1.1 142 RSICA-FAAAGNCPRGEKCPRVHG 164
56788.*****************9 PP
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| Protein Features
? help Back to Top |
 |
| Database |
Entry ID |
E-value |
Start |
End |
InterPro ID |
Description |
| PROSITE profile | PS50103 | 14.295 | 1 | 28 | IPR000571 | Zinc finger, CCCH-type |
| SMART | SM00356 | 3.9E-6 | 2 | 27 | IPR000571 | Zinc finger, CCCH-type |
| SuperFamily | SSF90229 | 4.45E-7 | 4 | 26 | IPR000571 | Zinc finger, CCCH-type |
| Pfam | PF15663 | 7.1E-8 | 7 | 62 | No hit | No description |
| PROSITE profile | PS50103 | 14.587 | 29 | 56 | IPR000571 | Zinc finger, CCCH-type |
| SuperFamily | SSF90229 | 3.4E-5 | 31 | 53 | IPR000571 | Zinc finger, CCCH-type |
| SMART | SM00356 | 3.8E-4 | 31 | 55 | IPR000571 | Zinc finger, CCCH-type |
| Gene3D | G3DSA:4.10.1000.10 | 4.1E-4 | 34 | 53 | IPR000571 | Zinc finger, CCCH-type |
| PROSITE profile | PS50103 | 12.746 | 139 | 166 | IPR000571 | Zinc finger, CCCH-type |
| SMART | SM00356 | 0.0092 | 140 | 165 | IPR000571 | Zinc finger, CCCH-type |
| Pfam | PF00642 | 1.6E-4 | 142 | 164 | IPR000571 | Zinc finger, CCCH-type |
| Gene3D | G3DSA:3.30.40.10 | 2.9E-10 | 201 | 266 | IPR013083 | Zinc finger, RING/FYVE/PHD-type |
| SuperFamily | SSF57850 | 1.33E-12 | 202 | 271 | No hit | No description |
| Pfam | PF13639 | 1.0E-7 | 207 | 265 | IPR001841 | Zinc finger, RING-type |
| CDD | cd00162 | 0.00103 | 207 | 266 | No hit | No description |
| SMART | SM00184 | 7.7E-8 | 208 | 264 | IPR001841 | Zinc finger, RING-type |
| PROSITE profile | PS50089 | 12.519 | 208 | 265 | IPR001841 | Zinc finger, RING-type |
| PROSITE pattern | PS00518 | 0 | 232 | 241 | IPR017907 | Zinc finger, RING-type, conserved site |
| SMART | SM00356 | 0.22 | 294 | 322 | IPR000571 | Zinc finger, CCCH-type |
| PROSITE profile | PS50103 | 13.122 | 294 | 323 | IPR000571 | Zinc finger, CCCH-type |
| Sequence ? help Back to Top |
| Protein Sequence Length: 361 aa
Download sequence Send
to blast |
MSERVLCKFF AHGACLKGDH CEFSHDWNNP SNNVCTYYQK GACAYGSRCR YDHVKLSRSQ 60
PSAQSSAQPQ QCLLSSSTPI NVSPGMGAHN ADVLPGICTE YLASSRPYDA SSQSAWNQKS 120
ELQDALEIDD MIELNSDNPA DRSICAFAAA GNCPRGEKCP RVHGDLCPTC GKHCLHPFRP 180
EEREEHIKTC ENKQKHLDLL KRSQEIECSV CLERVLSKST AAERKFGILS ECDHPFCVSC 240
IRNWRGSSSS GMDVNSALRA CPICRKLSYF VIPSVIWYFT KEEKEEIVDN YKNKLRSIDC 300
KHFDFGNGTC PFGTSCFYKH QHRDGRVEEV VLRHLGSEDG STVIAKNIRL SDFLRNFEIR 360
*
|
| Expression --
Description ? help
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| Source |
Description |
| Uniprot | DEVELOPMENTAL STAGE: Expressed in dry seeds. Increased expression throughout imbibition and germination and when radicle and shoots are emerging. Up-regulated during cell differentiation. {ECO:0000269|PubMed:17870591}. |
| Uniprot | TISSUE SPECIFICITY: Expressed in primary roots and leaves. Detected in vascular bundle tissues. {ECO:0000269|PubMed:17870591}. |
| Functional Description ? help
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| Source |
Description |
| UniProt | E3 ubiquitin ligase catalyzing the covalent attachment of ubiquitin moieties onto substrate proteins. {ECO:0000250}. |
| Annotation --
Nucleotide ? help
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| Source |
Hit ID |
E-value |
Description |
| GenBank | AC171732 | 0.0 | Solanum lycopersicum chromosome 10 clone C10HBa0111D09, complete sequence |
| GenBank | AC240228 | 0.0 | Solanum lycopersicum strain Heinz 1706 chromosome 10 clone slm-141c17 map 10, complete sequence |
| GenBank | AC244579 | 0.0 | Solanum lycopersicum strain Heinz 1706 chromosome 10 clone hba-40g5 map 10, complete sequence |
| Publications
? help Back to Top |
- Kikuchi S, et al.
Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
Science, 2003. 301(5631): p. 376-9
[PMID:12869764] - Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD
Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments.
Theor. Appl. Genet., 2005. 112(1): p. 72-84
[PMID:16208505] - Wang CT,Ho CH,Hseu MJ,Chen CM
The subtelomeric region of the Arabidopsis thaliana chromosome IIIR contains potential genes and duplicated fragments from other chromosomes.
Plant Mol. Biol., 2010. 74(1-2): p. 155-66
[PMID:20652368] - Sahi VP, et al.
A molecular insight into Darwin's "plant brain hypothesis" through expression pattern study of the MKRN gene in plant embryo compared with mouse embryo.
Plant Signal Behav, 2012. 7(3): p. 375-81
[PMID:22499205] - Wadekar HB,Sahi VP,Morita EH,Abe S
MKRN expression pattern during embryonic and post-embryonic organogenesis in rice (Oryza sativa L. var. Nipponbare).
Planta, 2013. 237(4): p. 1083-95
[PMID:23262670]
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