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.138470.1

Common Name

Csa_1G628000, LOC101217349

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

SRS

Protein Properties

Length: 308aa MW: 31146.6 Da PI: 8.7366

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.138470.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	196.5	8.7e-61	92	257	4	154
DUF702 4 gtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasa..aeaaskrkrelkskkqsalsstklssaes 96 g +C+dCGnqakkdC+h+RCR CCksrgfdC+thvkstWvpaa+rrerq + aa+ + a ++ +++ k++r ++++++ s+t++s++ + Cucsa.138470.1 92 GVGTCHDCGNQAKKDCSHRRCRSCCKSRGFDCSTHVKSTWVPAARRRERQMMGAASDAAAGGTSsgSTSGGKKPRLI-ASQTTTNSHTSTSNTPT 185 5568*******************************************9999998887777663345555556554.44444444555544443 PP DUF702 97 kkeletss...........lPeevsseavfrcvrvssvdd....geeelaYqtavsigGhvfkGiLydqGlee 154 + ++++ss lPe+++++avf+cvrv++v+ g +e+aYq++v+igGhvfkG+Lyd+G+e+ Cucsa.138470.1 186 P-SFDASSaadmsskkakkLPEQIRAPAVFKCVRVTAVEGgtsgGGNEYAYQAVVKIGGHVFKGYLYDHGVEA 257 3.55555556677789999***************9733335689********************986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	5.9E-57	95	256	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	1.9E-25	95	137	IPR006510	Zinc finger, lateral root primordium type 1
TIGRFAMs	TIGR01624	4.3E-24	204	255	IPR006511	Lateral Root Primordium type 1, C-terminal

Sequence ? help Back to Top
Protein Sequence Length: 308 aa Download sequence Send to blast
MWPSSRPLTI GYNHTPAPTP DMVGLMASGF GVGVSVLPLL SGLAPSSVGI EEANLMISRG 60 GGGDDGGGGI QFNGNNLDGF GILGGGSSLN SGVGTCHDCG NQAKKDCSHR RCRSCCKSRG 120 FDCSTHVKST WVPAARRRER QMMGAASDAA AGGTSSGSTS GGKKPRLIAS QTTTNSHTST 180 SNTPTPSFDA SSAADMSSKK AKKLPEQIRA PAVFKCVRVT AVEGGTSGGG NEYAYQAVVK 240 IGGHVFKGYL YDHGVEARDG FPMMSNLHLG DGGSTSSPVI DPADVYGSST TRGGGLAGGS 300 GYGNSIN*

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator that binds DNA on 5'-ACTCTAC-3' and promotes auxin homeostasis-regulating gene expression (e.g. YUC genes), as well as genes affecting stamen development, cell expansion and timing of flowering. Synergistically with other SHI-related proteins, regulates gynoecium, stamen and leaf development in a dose-dependent manner, controlling apical-basal patterning. Promotes style and stigma formation, and influence vascular development during gynoecium development. May also have a role in the formation and/or maintenance of the shoot apical meristem (SAM). Modulates root growth. {ECO:0000269\|PubMed:16740146, ECO:0000269\|PubMed:18835563}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Expression repressed by LDL1 via histone H3 and H4 deacetylation. {ECO:0000269\|PubMed:18835563}.

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	LN681807	0.0	LN681807.1 Cucumis melo genomic scaffold, anchoredscaffold00024.
GenBank	LN713256	0.0	LN713256.1 Cucumis melo genomic chromosome, chr_2.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_011660164.1	0.0	PREDICTED: protein LATERAL ROOT PRIMORDIUM 1-like
Swissprot	Q94CK9	1e-70	LRP1_ARATH; Protein LATERAL ROOT PRIMORDIUM 1
TrEMBL	A0A0A0M099	0.0	A0A0A0M099_CUCSA; Transcription factor
STRING	XP_004154692.1	0.0	(Cucumis sativus)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF24559	3	3

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G12330.2	2e-46	Lateral root primordium (LRP) protein-related

Link Out ? help Back to Top
Phytozome	Cucsa.138470.1
Entrez Gene	101217349

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] Estornell LH,Landberg K,Cierlik I,Sundberg E SHI/STY Genes Affect Pre- and Post-meiotic Anther Processes in Auxin Sensing Domains in Arabidopsis. Front Plant Sci, 2018. 9: p. 150 [PMID:29491878]