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.284430.1

Common Name

Csa_5G606780, LOC101219863

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

YABBY

Protein Properties

Length: 176aa MW: 19293.6 Da PI: 8.5025

Description

YABBY family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.284430.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	YABBY	144.9	8.4e-45	12	158	2	163
YABBY 2 dvfssseqvCyvqCnfCntilavsvPstslfkvvtvrCGhCtsllsvnlakasqllaaeshldeslkeelleelkveeenlksnvekeesastsv 96 d+++ se+ Cyv+CnfCnt+lav +P + +vtv+CGhC++l ++ + q + + ++l+ + +v +n + +++ ++++s+ Cucsa.284430.1 12 DLVQPSEHFCYVKCNFCNTVLAVGIPCRHWLDTVTVKCGHCSNLSFLSTRPPLQGQCI-D-------HPLTFQSQVGFSNNDH--IRKGASTSST 96 67899***********************************9866444443333322.2.......2333333333333322..2233333333 PP YABBY 97 sseklsenedeevprvppvirPPekrqrvPsaynrfikeeiqrikasnPdishreafsaaaknWahf 163 s+ ++ ++++p+ v++PPek+ r Psaynrf+keeiqrika+nP+i hreafsaaaknWa + Cucsa.284430.1 97 ST---ASSITNDSPN--FVVKPPEKKHRLPSAYNRFMKEEIQRIKAANPEIPHREAFSAAAKNWARY 158 33...3355666664..689*******************************************76 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF04690	3.0E-54	16	158	IPR006780	YABBY protein
SuperFamily	SSF47095	6.15E-9	102	156	IPR009071	High mobility group box domain
Gene3D	G3DSA:1.10.30.10	2.9E-5	112	157	IPR009071	High mobility group box domain
CDD	cd01390	3.04E-6	119	155	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010254	Biological Process	nectary development
GO:0010582	Biological Process	floral meristem determinacy
GO:0048479	Biological Process	style development

Sequence ? help Back to Top
Protein Sequence Length: 176 aa Download sequence Send to blast
MSNSEDKSSM ADLVQPSEHF CYVKCNFCNT VLAVGIPCRH WLDTVTVKCG HCSNLSFLST 60 RPPLQGQCID HPLTFQSQVG FSNNDHIRKG ASTSSTSTAS SITNDSPNFV VKPPEKKHRL 120 PSAYNRFMKE EIQRIKAANP EIPHREAFSA AAKNWARYIP NSAAGSVSGT HNNNE*

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor required for the initiation of nectary development. Also involved in suppressing early radial growth of the gynoecium, in promoting its later elongation and in fusion of its carpels by regulating both cell division and expansion. Establishes the polar differentiation in the carpels by specifying abaxial cell fate in the ovary wall. Regulates both cell division and expansion. {ECO:0000269\|PubMed:10225997, ECO:0000269\|PubMed:10225998, ECO:0000269\|PubMed:10535738, ECO:0000269\|PubMed:11714690, ECO:0000269\|PubMed:15598802, ECO:0000269\|Ref.10}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00220	DAP	Transfer from AT1G69180	Download

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Down-regulated by SPT and by A class genes AP2 and LUG in the outer whorl. In the third whorl, B class genes AP3 and PI, and the C class gene AG act redundantly with each other and in combination with SEP1, SEP2, SEP3, SHP1 and SHP2 to activate CRC in nectaries and carpels. LFY enhances its expression. {ECO:0000269\|PubMed:10225998, ECO:0000269\|PubMed:15598802}.

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	1e-65	LN681896.1 Cucumis melo genomic scaffold, anchoredscaffold00016.
GenBank	LN713264	1e-65	LN713264.1 Cucumis melo genomic chromosome, chr_10.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_008446454.1	1e-130	PREDICTED: protein CRABS CLAW
Refseq	XP_011655718.1	1e-130	PREDICTED: protein CRABS CLAW
Swissprot	Q8L925	5e-63	CRC_ARATH; Protein CRABS CLAW
TrEMBL	A0A0A0KQW3	1e-128	A0A0A0KQW3_CUCSA; Uncharacterized protein
TrEMBL	A0A1S3BFS7	1e-128	A0A1S3BFS7_CUCME; protein CRABS CLAW
STRING	XP_008446454.1	1e-129	(Cucumis melo)
STRING	XP_004155290.1	1e-129	(Cucumis sativus)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF10259	30	40

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G69180.1	5e-64	YABBY family protein

Link Out ? help Back to Top
Phytozome	Cucsa.284430.1
Entrez Gene	101219863

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] Fourquin C,Primo A,Martínez-Fernández I,Huet-Trujillo E,Ferrándiz C The CRC orthologue from Pisum sativum shows conserved functions in carpel morphogenesis and vascular development. Ann. Bot., 2014. 114(7): p. 1535-44 [PMID:24989787] Pfannebecker KC,Lange M,Rupp O,Becker A Seed Plant-Specific Gene Lineages Involved in Carpel Development. Mol. Biol. Evol., 2017. 34(4): p. 925-942 [PMID:28087776] Yamaguchi N,Huang J,Xu Y,Tanoi K,Ito T Fine-tuning of auxin homeostasis governs the transition from floral stem cell maintenance to gynoecium formation. Nat Commun, 2017. 8(1): p. 1125 [PMID:29066759] Yamaguchi N, et al. Chromatin-mediated feed-forward auxin biosynthesis in floral meristem determinacy. Nat Commun, 2018. 9(1): p. 5290 [PMID:30538233]