PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Cucsa.101030.1

Common Name

Csa_6G483460, LOC101208018

Organism

Cucumis sativus

Taxonomic ID

3659

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Cucumis

Family

C3H

Protein Properties

Length: 889aa MW: 98688.6 Da PI: 8.0146

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.101030.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	23	1.4e-07	300	320	5	26
--SGGGGTS--TTTTT-SS-SS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHg 26 C+ffa+ GtC+ G +CkF+H Cucsa.101030.1 300 TCKFFAA-GTCRNGKNCKFSHH 320 69999.***********5 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1000.10	5.6E-7	173	200	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.0012	174	200	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.22	174	201	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.79E-5	176	199	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.61	233	259	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.535	233	260	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.69	295	322	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.3E-4	296	321	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.14E-6	298	320	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	4.4E-5	300	320	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 889 aa Download sequence Send to blast
MSGSGRKRTS KWDLREDSHV ETDIAQEHGW PGKESRPGWI SPELAGDDGS KWSGMETTNG 60 ISKPKQDWGL LLEEPFPGTR ASHKEDYTSK GYNKDLEGTA EWDADDKSYS TRMSPGLDEW 120 RRHRSSLSDR NDGSRSVRGR SRSRSWSRSR SRSRSPHSFK RDSAFHDRNR NRSRVSTQLC 180 REFVSGRCRR GNGCQFLHQD NQIMDDSWDS RNRKGGRSLR STPHDFRDYP RSGRSAAQCT 240 DFVKGRCHRG ASCKYPHDSA FHDLSRGSPN DISRDRENDR SKEAYFSRGE REPGNSSLVT 300 CKFFAAGTCR NGKNCKFSHH SQPRASPERK SSTDRWEQDP FSDGRERLWD GSKSSELASA 360 SDFTQLREDK GEQIASQEPS YTWASEQKWV HGLNNESKTQ WDQTVGVKAV QGNKNDTILS 420 KAEDTGGCIG TSDPRGHRKW PSDDMEMSPD WHYPVQPSNH VVKSDCNIVP DSGSKTSIAL 480 ATLSHAIVQE ALAKKQDIAI EPITADNTHF RQNLNLTKDV TIASAFNDKI TMDKTIASHA 540 EGNPSSNTVL VQRMAYHTDH PGGTVMNPKV SDGNFRVKQK EEDGSVPGIN SGTTIAPNIV 600 TSEQITQLTN LSVSLAQYFG NVQPLPQIYN SLNTQSVSET ASFSYSDAST GALGLPMKSG 660 PVVESSKQHD SALCNSLELK KLEVTKTPSD CLPNSAGQKI ATEVKDEVQM PNLPLSSDPR 720 DKVGISAKET FHGSDAINHA KLATEGEAIK EKNGDGDNEN KTDPEDSQEN DTTENANGND 780 GVHDKKKSKD AKGIRAFKFA LVEFVKELLK PTWKEGHISK DVYKTIVKKV VDKVTGTLQG 840 GHIPQTQEKI DHYLSFSKSK LTKLVQGNAH TQDPACSYVF LSPNKYLE*

Sequence ? help Back to Top

Protein Sequence Length: 889 aa Download sequence Send to blast

MSGSGRKRTS KWDLREDSHV ETDIAQEHGW PGKESRPGWI SPELAGDDGS KWSGMETTNG  60
ISKPKQDWGL LLEEPFPGTR ASHKEDYTSK GYNKDLEGTA EWDADDKSYS TRMSPGLDEW  120
RRHRSSLSDR NDGSRSVRGR SRSRSWSRSR SRSRSPHSFK RDSAFHDRNR NRSRVSTQLC  180
REFVSGRCRR GNGCQFLHQD NQIMDDSWDS RNRKGGRSLR STPHDFRDYP RSGRSAAQCT  240
DFVKGRCHRG ASCKYPHDSA FHDLSRGSPN DISRDRENDR SKEAYFSRGE REPGNSSLVT  300
CKFFAAGTCR NGKNCKFSHH SQPRASPERK SSTDRWEQDP FSDGRERLWD GSKSSELASA  360
SDFTQLREDK GEQIASQEPS YTWASEQKWV HGLNNESKTQ WDQTVGVKAV QGNKNDTILS  420
KAEDTGGCIG TSDPRGHRKW PSDDMEMSPD WHYPVQPSNH VVKSDCNIVP DSGSKTSIAL  480
ATLSHAIVQE ALAKKQDIAI EPITADNTHF RQNLNLTKDV TIASAFNDKI TMDKTIASHA  540
EGNPSSNTVL VQRMAYHTDH PGGTVMNPKV SDGNFRVKQK EEDGSVPGIN SGTTIAPNIV  600
TSEQITQLTN LSVSLAQYFG NVQPLPQIYN SLNTQSVSET ASFSYSDAST GALGLPMKSG  660
PVVESSKQHD SALCNSLELK KLEVTKTPSD CLPNSAGQKI ATEVKDEVQM PNLPLSSDPR  720
DKVGISAKET FHGSDAINHA KLATEGEAIK EKNGDGDNEN KTDPEDSQEN DTTENANGND  780
GVHDKKKSKD AKGIRAFKFA LVEFVKELLK PTWKEGHISK DVYKTIVKKV VDKVTGTLQG  840
GHIPQTQEKI DHYLSFSKSK LTKLVQGNAH TQDPACSYVF LSPNKYLE*

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	LN681875	0.0	LN681875.1 Cucumis melo genomic scaffold, anchoredscaffold00007.
GenBank	LN713262	0.0	LN713262.1 Cucumis melo genomic chromosome, chr_8.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_011657755.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 38 isoform X1
Refseq	XP_011657756.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 38 isoform X1
Refseq	XP_011657758.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 38 isoform X1
TrEMBL	A0A0A0KF74	0.0	A0A0A0KF74_CUCSA; Uncharacterized protein
STRING	XP_004148674.1	0.0	(Cucumis sativus)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF4099	32	52

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G33835.1	3e-09	C3H family protein

Link Out ? help Back to Top
Phytozome	Cucsa.101030.1
Entrez Gene	101208018

Publications ? help Back to Top
Ren Y, et al. An integrated genetic and cytogenetic map of the cucumber genome. PLoS ONE, 2009. 4(6): p. e5795 [PMID:19495411] Guo S, et al. Transcriptome sequencing and comparative analysis of cucumber flowers with different sex types. BMC Genomics, 2010. 11: p. 384 [PMID:20565788] Li Z, et al. RNA-Seq improves annotation of protein-coding genes in the cucumber genome. BMC Genomics, 2011. 12: p. 540 [PMID:22047402]