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

mrna06358.1-v1.0-hybrid

Organism

Fragaria vesca

Taxonomic ID

57918

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Rosoideae; Potentilleae; Fragariinae; Fragaria

Family

Trihelix

Protein Properties

Length: 298aa MW: 33402.7 Da PI: 9.7249

Description

Trihelix family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
mrna06358.1-v1.0-hybrid	genome	GDR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	trihelix	66.6	5.1e-21	205	285	1	86
trihelix 1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 +W+ +ev++ i++r ++++r++ k +++lWee+s+++ ++g++rsp qCk+ w +l ++y++ k g++++ +++py+++++ mrna06358.1-v1.0-hybrid 205 KWKPEEVKKFIKMRGKLHSRFQVVKGRMALWEEISRNLLAEGINRSPGQCKSLWASLVQKYEESKSGKRSQ-----KSWPYYEEMD 285 7****************************************************************9984.....56*****7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50090	8.06	198	262	IPR017877	Myb-like domain
Gene3D	G3DSA:1.10.10.60	1.4E-5	202	263	IPR009057	Homeodomain-like
Pfam	PF13837	9.0E-19	203	285	No hit	No description
CDD	cd12203	2.17E-21	204	269	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 298 aa Download sequence Send to blast
MSRPSHLRSS LALLQSPPSL IPGAVEIFSH RGKEEPTQAS PSQGLSLTRP VEPRIHLHGQ 60 RPSPAAWRSR TGVICLCEFA LSPRVRENPA AVLADEVSTR LSGKSHVGYD RSALRKVNDG 120 NLNKSRSTRT QSDEAKDNIE LQSSTIEKDF EEEPNDIWNA MVKLSAGDKL AEDKNDLVLQ 180 EENLKKDDPE STERTSPSKP VKRNKWKPEE VKKFIKMRGK LHSRFQVVKG RMALWEEISR 240 NLLAEGINRS PGQCKSLWAS LVQKYEESKS GKRSQKSWPY YEEMDGALSD SEAMATK*

Functional Description ? help Back to Top
Source	Description
UniProt	Essential protein required during embryogenesis, especially in initiating and maintaining the organization of shoot apical meristems (SAMs), cotyledons, and hypocotyls (PubMed:15266054, PubMed:25871650). Involved in auxin-mediated pathways during embryogenesis (PubMed:25871650). RNase that has both endonuclease and 5'-3' exonuclease activities. Involved in RNA surveillance to prevent overaccumulation of antisense RNA (PubMed:22033332). Probably involved in maturation of rRNA and in some organisms also mRNA maturation and/or decay (By similarity). {ECO:0000250\|UniProtKB:Q72JJ7, ECO:0000269\|PubMed:15266054, ECO:0000269\|PubMed:22033332, ECO:0000269\|PubMed:25871650}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	mrna06358.1-v1.0-hybrid

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By light. {ECO:0000269\|PubMed:25871650}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_011463282.1	1e-152	PREDICTED: uncharacterized protein LOC105351207
Swissprot	Q84W56	5e-55	RNJ_ARATH; Ribonuclease J
TrEMBL	A0A2P6P4Z1	1e-113	A0A2P6P4Z1_ROSCH; Putative beta-lactamase transcription factor MYB family
STRING	XP_004297533.1	1e-132	(Fragaria vesca)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G63420.1	4e-57	Trihelix family protein

Link Out ? help Back to Top
Phytozome	mrna06358.1-v1.0-hybrid

Publications ? help Back to Top
Bryant N,Lloyd J,Sweeney C,Myouga F,Meinke D Identification of nuclear genes encoding chloroplast-localized proteins required for embryo development in Arabidopsis. Plant Physiol., 2011. 155(4): p. 1678-89 [PMID:21139083] Halpert M,Liveanu V,Glaser F,Schuster G The Arabidopsis chloroplast RNase J displays both exo- and robust endonucleolytic activities. Plant Mol. Biol., 2019. 99(1-2): p. 17-29 [PMID:30511330]