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.342610.1

Common Name

Csa_3G860240

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

M-type_MADS

Protein Properties

Length: 210aa MW: 23461.2 Da PI: 9.7286

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.342610.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	74.5	8.3e-24	22	69	2	49
---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEE CS SRF-TF 2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyey 49 + e ks +qvtfskRr+g++KKA ELSvLC+aeva+i+fs+++kl+ + Cucsa.342610.1 22 KLEKKSSKQVTFSKRRAGLFKKAGELSVLCGAEVAIIVFSPNDKLFCF 69 67899****************************************876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00432	1.9E-33	13	72	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS50066	27.235	13	73	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF55455	3.53E-28	14	83	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	9.5E-22	15	35	IPR002100	Transcription factor, MADS-box
PROSITE pattern	PS00350	0	15	69	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	5.7E-24	23	69	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	9.5E-22	35	50	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	9.5E-22	50	71	IPR002100	Transcription factor, MADS-box

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 210 aa Download sequence Send to blast
MEKLNAIPMK KTLGRQKIEI KKLEKKSSKQ VTFSKRRAGL FKKAGELSVL CGAEVAIIVF 60 SPNDKLFCFG HPDVDVLLDR YLTGNLSPPK PAESYIPVAE FNRDFADFAL EFEAEKKRAA 120 ELIRAAEDSR KNGGFWWQEA VEGLRLEELK DFRSALMDLR AKVAERVEKL TAPMTSSPFH 180 LIGNHQELPP PTAFHLAGNQ RVATGLGFF*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5f28_A	1e-17	13	94	1	78	MEF2C
5f28_B	1e-17	13	94	1	78	MEF2C
5f28_C	1e-17	13	94	1	78	MEF2C
5f28_D	1e-17	13	94	1	78	MEF2C
6byy_A	1e-17	13	100	1	86	MEF2 CHIMERA
6byy_B	1e-17	13	100	1	86	MEF2 CHIMERA
6byy_C	1e-17	13	100	1	86	MEF2 CHIMERA
6byy_D	1e-17	13	100	1	86	MEF2 CHIMERA
Search in ModeBase

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	LN681824	0.0	LN681824.1 Cucumis melo genomic scaffold, anchoredscaffold01596.
GenBank	LN713258	0.0	LN713258.1 Cucumis melo genomic chromosome, chr_4.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004147877.2	1e-130	PREDICTED: agamous-like MADS-box protein AGL62
TrEMBL	A0A0A0LE01	1e-134	A0A0A0LE01_CUCSA; Uncharacterized protein
STRING	XP_004164009.1	1e-138	(Cucumis sativus)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF128	33	331

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G60440.1	3e-34	AGAMOUS-like 62

Link Out ? help Back to Top
Phytozome	Cucsa.342610.1

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]