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

maker-scaffold16332-snap-gene-0.4-mRNA-1

Organism

Castanea mollissima

Taxonomic ID

60419

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fagales; Fagaceae; Castanea

Family

YABBY

Protein Properties

Length: 171aa MW: 18933.4 Da PI: 8.9047

Description

YABBY family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
maker-scaffold16332-snap-gene-0.4-mRNA-1	genome	THGP	View Nucleic Acid

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	YABBY	152.3	4.3e-47	10	155	2	163
YABBY 2 dvfssseqvCyvqCnfCntilavsvPstslfkvvtvrCGhCtsllsvnlakasqllaaeshldeslkee 70 d + se++Cyv+CnfCnt+lav +P++ l+ +vtv+CGhC++l ++ + +q + + l + maker-scaffold16332-snap-gene-0.4-mRNA-1 10 DSVPPSEHLCYVRCNFCNTVLAVGIPFKRLLDTVTVKCGHCSNLSFISTRPPVQGQCPDHSL------S 72 667899***********************************8776555554443333222......2 PP YABBY 71 lleelkveeenlksnvekeesastsvsseklsenedeevprvppvirPPekrqrvPsaynrfikeeiqr 139 l+e++++ +++++ + ++s+s+s ++++ +p++p v++PPek+ r Psaynrf+keeiqr maker-scaffold16332-snap-gene-0.4-mRNA-1 73 LQEKQGFC-NDFRKVH--SSSSSSS-------TSSEPLSPKAPFVVKPPEKKHRLPSAYNRFMKEEIQR 131 33333322.2232222..2222222.......334556799999********************* PP YABBY 140 ikasnPdishreafsaaaknWahf 163 ika+nP+i hreafs+aaknWa + maker-scaffold16332-snap-gene-0.4-mRNA-1 132 IKAANPEIPHREAFSTAAKNWARY 155 ********************76 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF04690	1.8E-55	14	155	IPR006780	YABBY protein
SuperFamily	SSF47095	1.03E-8	99	153	IPR009071	High mobility group box domain
Gene3D	G3DSA:1.10.30.10	3.5E-5	109	154	IPR009071	High mobility group box domain

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: 171 aa Download sequence Send to blast
MNLEDKVSMD SVPPSEHLCY VRCNFCNTVL AVGIPFKRLL DTVTVKCGHC SNLSFISTRP 60 PVQGQCPDHS LSLQEKQGFC NDFRKVHSSS SSSSTSSEPL SPKAPFVVKP PEKKHRLPSA 120 YNRFMKEEIQ RIKAANPEIP HREAFSTAAK NWARYIPNSP AGSVSGSNNN E

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	EU189751	5e-66	EU189751.1 Castanea henryi CRABS CLAW protein (CRC) gene, partial cds.
GenBank	EU189752	5e-66	EU189752.1 Castanea mollissima clone AC CRABS CLAW protein (CRC) gene, partial cds.
GenBank	EU189754	5e-66	EU189754.1 Castanea pumila CRABS CLAW protein (CRC) gene, partial cds.
GenBank	EU189755	5e-66	EU189755.1 Castanea sativa clone A CRABS CLAW protein (CRC) gene, partial cds.
GenBank	EU189756	5e-66	EU189756.1 Castanea sativa clone B CRABS CLAW protein (CRC) gene, partial cds.
GenBank	EU189757	5e-66	EU189757.1 Castanea sativa clone C CRABS CLAW protein (CRC) gene, partial cds.
GenBank	EU189760	5e-66	EU189760.1 Castanopsis carlesii clone B CRABS CLAW protein (CRC) gene, partial cds.
GenBank	EU189761	5e-66	EU189761.1 Castanopsis carlesii clone C CRABS CLAW protein (CRC) gene, partial cds.
GenBank	EU189762	5e-66	EU189762.1 Castanopsis carlesii clone D CRABS CLAW protein (CRC) gene, partial cds.
GenBank	EU189768	5e-66	EU189768.1 Castanopsis fleuryi clone A CRABS CLAW protein (CRC) gene, partial cds.
GenBank	EU189769	5e-66	EU189769.1 Castanopsis fleuryi clone B CRABS CLAW protein (CRC) gene, partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_023917856.1	1e-125	protein CRABS CLAW isoform X1
Swissprot	Q8L925	8e-68	CRC_ARATH; Protein CRABS CLAW
TrEMBL	A0A067KYR0	2e-99	A0A067KYR0_JATCU; Uncharacterized protein
STRING	cassava4.1_023863m	3e-97	(Manihot esculenta)

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	7e-69	YABBY family protein

Publications ? help Back to Top
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]