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.307920.1

Common Name

Csa_5G623840, LOC101220990

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: 284aa MW: 29868.1 Da PI: 8.6677

Description

SRS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.307920.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF702	193.7	6.2e-60	98	263	6	154
DUF702 6 asCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasa......aeaaskrkrelks.kkqsalsstklss 93 a C+dCGn+akk+C+++RCRtCCk rg +C+thvkstWvpaa+rrerq + +a+ ++a +kr+r l ++++a++++++s+ Cucsa.307920.1 98 AVCRDCGNRAKKECEYRRCRTCCKGRGNHCSTHVKSTWVPAARRRERQMLVVMDGVATASGDggssgsSSAGAKRPRVLIPsQSAAAAAAASTSN 192 68*******************************************987766554444444566676888899999885515556677889999 PP DUF702 94 aeskkeletss..........lPeevsseavfrcvrvssvddgeeelaYqtavsigGhvfkGiLydqGlee 154 a++++++et+s lP +v+++avfrc rv++++ ge elaYq++v+igGhvfkG+LydqG+++ Cucsa.307920.1 193 ATTPRSFETTSshqdasfkksLPGHVRAPAVFRCHRVTAISSGEGELAYQATVNIGGHVFKGFLYDQGADD 263 *99999999*****************************************************997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05142	7.9E-57	98	262	IPR007818	Protein of unknown function DUF702
TIGRFAMs	TIGR01623	1.2E-24	99	141	IPR006510	Zinc finger, lateral root primordium type 1
TIGRFAMs	TIGR01624	3.1E-26	214	260	IPR006511	Lateral Root Primordium type 1, C-terminal

Sequence ? help Back to Top
Protein Sequence Length: 284 aa Download sequence Send to blast
TQIISSDHHP SLPLPSSTAL GVSVGIFPLL AATPCLPPSQ PPPNNHTPDD VTDRTRTFDN 60 LKRTQDFGFG KGESLIAGPG NNGSDEHVKG DAGDGSMAVC RDCGNRAKKE CEYRRCRTCC 120 KGRGNHCSTH VKSTWVPAAR RRERQMLVVM DGVATASGDG GSSGSSSAGA KRPRVLIPSQ 180 SAAAAAAAST SNATTPRSFE TTSSHQDASF KKSLPGHVRA PAVFRCHRVT AISSGEGELA 240 YQATVNIGGH VFKGFLYDQG ADDKNAFPSI SHLHLDSGNH HRE*

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	LN681896	0.0	LN681896.1 Cucumis melo genomic scaffold, anchoredscaffold00016.
GenBank	LN713264	0.0	LN713264.1 Cucumis melo genomic chromosome, chr_10.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004142483.1	0.0	PREDICTED: protein LATERAL ROOT PRIMORDIUM 1
Swissprot	Q94CK9	2e-57	LRP1_ARATH; Protein LATERAL ROOT PRIMORDIUM 1
TrEMBL	A0A0A0KWX6	0.0	A0A0A0KWX6_CUCSA; Uncharacterized protein
STRING	XP_004142483.1	0.0	(Cucumis sativus)
STRING	XP_004169496.1	0.0	(Cucumis sativus)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF5704	31	54

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G12330.2	5e-55	Lateral root primordium (LRP) protein-related

Link Out ? help Back to Top
Phytozome	Cucsa.307920.1
Entrez Gene	101220990

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]