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

Csa02g071890.1

Organism

Camelina sativa

Taxonomic ID

90675

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Camelina

Family

Trihelix

Protein Properties

Length: 81aa MW: 9177.3 Da PI: 5.705

Description

Trihelix family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa02g071890.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	trihelix	57.9	2.6e-18	1	69	13	86
trihelix 13 arremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 +r e+++r++ k +++lWee+s++++++gf rsp qCk+ w +l ++y+++k+ e+++ +++p+f++++ Csa02g071890.1 1 MRGELHSRFQVVKGRMALWEEISSNLSAEGFDRSPGQCKSLWASLIQKYEECKAEERSK-----TSWPHFEDMN 69 588999*************************************************95.....36****97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd12203	7.08E-17	1	53	No hit	No description
Pfam	PF13837	5.1E-15	3	70	No hit	No description

Sequence ? help Back to Top
Protein Sequence Length: 81 aa Download sequence Send to blast
MRGELHSRFQ VVKGRMALWE EISSNLSAEG FDRSPGQCKS LWASLIQKYE ECKAEERSKT 60 SWPHFEDMNN ILSELGTPTS *

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	Csa02g071890.1

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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK176547	5e-97	AK176547.1 Arabidopsis thaliana mRNA for putative protein, complete cds, clone: RAFL25-06-L06.
GenBank	AK221272	5e-97	AK221272.1 Arabidopsis thaliana mRNA for putative protein, complete cds, clone: RAFL24-15-P14.
GenBank	BT004210	5e-97	BT004210.1 Arabidopsis thaliana clone RAFL16-01-C03 (R50172) unknown protein (At5g63420) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_019093836.1	2e-49	PREDICTED: uncharacterized protein LOC104741250 isoform X1
Refseq	XP_019093840.1	2e-49	PREDICTED: uncharacterized protein LOC104741250 isoform X2
Swissprot	Q84W56	1e-46	RNJ_ARATH; Ribonuclease J
TrEMBL	R0G7Y9	2e-44	R0G7Y9_9BRAS; Uncharacterized protein
STRING	XP_010444239.1	1e-47	(Camelina sativa)
STRING	XP_010460300.1	1e-53	(Camelina sativa)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G63420.1	5e-49	Trihelix family protein

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]