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.090320.1

Common Name

Csa_2G035330, LOC101216738

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

bHLH

Protein Properties

Length: 707aa MW: 75766.5 Da PI: 6.5447

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.090320.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	50.7	3.2e-16	476	522	4	55
HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 hn ErrRRdriN+++ L+el+P++ K++Ka++L +A+eY+k Lq Cucsa.090320.1 476 VHNLSERRRRDRINEKMRALQELIPNC-----NKVDKASMLDEAIEYLKTLQ 522 6***********************8.....6****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00083	2.43E-17	468	526	No hit	No description
Gene3D	G3DSA:4.10.280.10	3.3E-20	469	530	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	1.44E-20	469	533	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	18.349	472	521	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.0E-13	476	522	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	1.7E-17	478	527	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009704	Biological Process	de-etiolation
GO:0009740	Biological Process	gibberellic acid mediated signaling pathway
GO:0010017	Biological Process	red or far-red light signaling pathway
GO:0031539	Biological Process	positive regulation of anthocyanin metabolic process
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0042802	Molecular Function	identical protein binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 707 aa Download sequence Send to blast
MPLSELYRVA RGKLDSTQDK NSMVASDLSM NPENDVFELV WENGQILLQG QSNRPRKNSN 60 LNTSQAQCLP SHSPRDRDRD VGYFNNAKMG KFGAIDSVVR DVMSTAPSPD VELAHDDDDD 120 MVPWLSYPLD GHLQHDYSSD FLPELSGVTV NDFPSRNSIA SSIGKASGGN QVNRERDMHL 180 NSMHGANLED GNISKLSSLD VSAARARSST NQLHSSASQQ SQTSFPHLRT KCAGETENTT 240 GKMLHDSLVG HSPQVPLIAS SSSSIAKQKL DPTPPNNSSN IINFSHFLRP ASLLKSNPQK 300 HGVPGTGGSR NLDSMVNNSS AANSQPHESS LIAIQGGIRN ESNSGCKNAV VPTIDGKSPS 360 DAKPLEQSQT NKQPEAACLG DSADHDDRLK HRFEVGATKG LADSEKAVES VFAASLCSRN 420 SVEGASDDPP HNRKRKCHDT EDSEWHSDDV EEDCNDVKRV TSARGAGSKR SRAAEVHNLS 480 ERRRRDRINE KMRALQELIP NCNKVDKASM LDEAIEYLKT LQLQVQIMSM GAGLFMPPMM 540 FPGAMAPMNT PHIYPPMGIG MGYGIGMPDM NGGIPMVQVP HMQGMHFPGP SMPAQTVMHG 600 LPSSNFQVLG LPGQGLPMPM PRGPVAPFSG GPFVTNSSMA VAPVDNFGST AACSSKDASP 660 NINSPMGPNG GTDPSITPAL RQANEQASCV NASSVKPTSK KDLIAN*

Sequence ? help Back to Top

Protein Sequence Length: 707 aa Download sequence Send to blast

MPLSELYRVA RGKLDSTQDK NSMVASDLSM NPENDVFELV WENGQILLQG QSNRPRKNSN  60
LNTSQAQCLP SHSPRDRDRD VGYFNNAKMG KFGAIDSVVR DVMSTAPSPD VELAHDDDDD  120
MVPWLSYPLD GHLQHDYSSD FLPELSGVTV NDFPSRNSIA SSIGKASGGN QVNRERDMHL  180
NSMHGANLED GNISKLSSLD VSAARARSST NQLHSSASQQ SQTSFPHLRT KCAGETENTT  240
GKMLHDSLVG HSPQVPLIAS SSSSIAKQKL DPTPPNNSSN IINFSHFLRP ASLLKSNPQK  300
HGVPGTGGSR NLDSMVNNSS AANSQPHESS LIAIQGGIRN ESNSGCKNAV VPTIDGKSPS  360
DAKPLEQSQT NKQPEAACLG DSADHDDRLK HRFEVGATKG LADSEKAVES VFAASLCSRN  420
SVEGASDDPP HNRKRKCHDT EDSEWHSDDV EEDCNDVKRV TSARGAGSKR SRAAEVHNLS  480
ERRRRDRINE KMRALQELIP NCNKVDKASM LDEAIEYLKT LQLQVQIMSM GAGLFMPPMM  540
FPGAMAPMNT PHIYPPMGIG MGYGIGMPDM NGGIPMVQVP HMQGMHFPGP SMPAQTVMHG  600
LPSSNFQVLG LPGQGLPMPM PRGPVAPFSG GPFVTNSSMA VAPVDNFGST AACSSKDASP  660
NINSPMGPNG GTDPSITPAL RQANEQASCV NASSVKPTSK KDLIAN*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	480	485	ERRRRD

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00081	ChIP-seq	Transfer from AT1G09530	Download

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	LN681847	0.0	LN681847.1 Cucumis melo genomic scaffold, anchoredscaffold00003.
GenBank	LN713259	0.0	LN713259.1 Cucumis melo genomic chromosome, chr_5.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_011648884.1	0.0	PREDICTED: transcription factor PIF3 isoform X1
Refseq	XP_011648885.1	0.0	PREDICTED: transcription factor PIF3 isoform X1
TrEMBL	A0A0A0LH16	0.0	A0A0A0LH16_CUCSA; Uncharacterized protein
STRING	XP_008453043.1	0.0	(Cucumis melo)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF5271	33	53

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G09530.2	2e-36	phytochrome interacting factor 3

Link Out ? help Back to Top
Phytozome	Cucsa.090320.1
Entrez Gene	101216738

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]