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

Gorai.013G172800.2

Common Name

B456_013G172800, LOC105783160

Organism

Gossypium raimondii

Taxonomic ID

29730

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium

Family

TCP

Protein Properties

Length: 410aa MW: 44213.7 Da PI: 7.3274

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.013G172800.2	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	113.8	2.4e-35	36	136	3	89
TCP 3 gkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgt......ssssasec...eaesssssasn 84 g+kdrhsk++T++g+RdRRvRlsa++a++f+d+qd+LG+d++sk+++WL+++ak ai+el+++ + ++ +++++++n Gorai.013G172800.2 36 GRKDRHSKVCTAKGPRDRRVRLSAHTAIQFYDVQDRLGYDRPSKAVDWLIKKAKSAIDELAELppwnpqT------LtttTSTTKQNNQQN 120 89*************************************************************5544330......232222233333333 PP TCP 85 sssg...........k 89 +++ + Gorai.013G172800.2 121 QNIItavdnekprrtA 136 3333445444333330 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	2.1E-32	36	137	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	34.187	37	95	IPR017887	Transcription factor TCP subgroup

Sequence ? help Back to Top
Protein Sequence Length: 410 aa Download sequence Send to blast
MGESNHQAAT SSRLGLKHSG GEIVEVQGGH IVRSIGRKDR HSKVCTAKGP RDRRVRLSAH 60 TAIQFYDVQD RLGYDRPSKA VDWLIKKAKS AIDELAELPP WNPQTLTTTT STTKQNNQQN 120 QNIITAVDNE KPRRTATLMG NQVQILQQQG TGDNPNSNSG FLPSSLVSDE IADTMKSSFP 180 LGASSEAPSS SIQFQNYPPD FLSKTSSHSQ DLRLSLQSFP EPVLLHHHHQ AAAAQAHQTE 240 SVLFSAGTSP LAGFDGSSAG WENHHHHPAE VGRLQRLVAW NNGAAAADTG SGGGGGMGGF 300 LFGNLSAPPL SPAFGQNGQF FFQRGPLQSS NTPLVRAWID QPIPTTDEYH HHHHQIPQNI 360 HHQPALSGIE FTTSGVFSGF RVPARFQGAQ EDQDSIANKL SSASSDSHH*

Sequence ? help Back to Top

Protein Sequence Length: 410 aa Download sequence Send to blast

MGESNHQAAT SSRLGLKHSG GEIVEVQGGH IVRSIGRKDR HSKVCTAKGP RDRRVRLSAH  60
TAIQFYDVQD RLGYDRPSKA VDWLIKKAKS AIDELAELPP WNPQTLTTTT STTKQNNQQN  120
QNIITAVDNE KPRRTATLMG NQVQILQQQG TGDNPNSNSG FLPSSLVSDE IADTMKSSFP  180
LGASSEAPSS SIQFQNYPPD FLSKTSSHSQ DLRLSLQSFP EPVLLHHHHQ AAAAQAHQTE  240
SVLFSAGTSP LAGFDGSSAG WENHHHHPAE VGRLQRLVAW NNGAAAADTG SGGGGGMGGF  300
LFGNLSAPPL SPAFGQNGQF FFQRGPLQSS NTPLVRAWID QPIPTTDEYH HHHHQIPQNI  360
HHQPALSGIE FTTSGVFSGF RVPARFQGAQ EDQDSIANKL SSASSDSHH*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	7e-21	42	95	1	54	Putative transcription factor PCF6
5zkt_B	7e-21	42	95	1	54	Putative transcription factor PCF6
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Gra.1195	0.0	flower\| flowering

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed in cotyledons during embryogenesis. Expressed during ovule development (PubMed:25378179). {ECO:0000269\|PubMed:25378179}.
Uniprot	TISSUE SPECIFICITY: Expressed in cotyledons, particularly in the vascular region, in leaves, roots, buds, flowers and immature siliques. {ECO:0000269\|PubMed:17307931}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor playing a pivotal role in the control of morphogenesis of shoot organs by negatively regulating the expression of boundary-specific genes such as CUC genes, probably through the induction of miRNA (e.g. miR164) (PubMed:12931144, PubMed:17307931). Required during early steps of embryogenesis (PubMed:15634699). Participates in ovule develpment (PubMed:25378179). Activates LOX2 expression by binding to the 5'-GGACCA-3' motif found in its promoter (PubMed:18816164). {ECO:0000269\|PubMed:12931144, ECO:0000269\|PubMed:15634699, ECO:0000269\|PubMed:17307931, ECO:0000269\|PubMed:18816164, ECO:0000269\|PubMed:25378179}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Repressed by the miRNA miR-JAW/miR319 (PubMed:12931144, PubMed:18816164). {ECO:0000269\|PubMed:12931144, ECO:0000269\|PubMed:18816164}.

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	JX964129	1e-129	JX964129.1 Gossypium hirsutum clone NBRI_TRANS-398 microsatellite sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012463886.1	0.0	PREDICTED: transcription factor TCP4-like
Refseq	XP_012463887.1	0.0	PREDICTED: transcription factor TCP4-like
Refseq	XP_012463888.1	0.0	PREDICTED: transcription factor TCP4-like
Swissprot	Q8LPR5	1e-108	TCP4_ARATH; Transcription factor TCP4
TrEMBL	A0A0D2W706	0.0	A0A0D2W706_GOSRA; Uncharacterized protein
STRING	Gorai.013G172800.1	0.0	(Gossypium raimondii)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G15030.3	1e-98	TCP family protein

Link Out ? help Back to Top
Phytozome	Gorai.013G172800.2
Entrez Gene	105783160

Publications ? help Back to Top
Schommer C, et al. Control of jasmonate biosynthesis and senescence by miR319 targets. PLoS Biol., 2008. 6(9): p. e230 [PMID:18816164] Paterson AH, et al. Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres. Nature, 2012. 492(7429): p. 423-7 [PMID:23257886] Ju Y, et al. Arabidopsis JINGUBANG Is a Negative Regulator of Pollen Germination That Prevents Pollination in Moist Environments. Plant Cell, 2016. 28(9): p. 2131-2146 [PMID:27468890] Challa KR,Aggarwal P,Nath U Activation of YUCCA5 by the Transcription Factor TCP4 Integrates Developmental and Environmental Signals to Promote Hypocotyl Elongation in Arabidopsis. Plant Cell, 2016. 28(9): p. 2117-2130 [PMID:27597774] Alvarez JP,Furumizu C,Efroni I,Eshed Y,Bowman JL Active suppression of a leaf meristem orchestrates determinate leaf growth. Elife, 2017. [PMID:27710768] Li J, et al. RABBIT EARS regulates the transcription of TCP4 during petal development in Arabidopsis. J. Exp. Bot., 2016. 67(22): p. 6473-6480 [PMID:27838638] Sun X, et al. Activation of secondary cell wall biosynthesis by miR319-targeted TCP4 transcription factor. Plant Biotechnol. J., 2017. 15(10): p. 1284-1294 [PMID:28233945] Kubota A, et al. TCP4-dependent induction of CONSTANS transcription requires GIGANTEA in photoperiodic flowering in Arabidopsis. PLoS Genet., 2017. 13(6): p. e1006856 [PMID:28628608] Koyama T,Sato F,Ohme-Takagi M Roles of miR319 and TCP Transcription Factors in Leaf Development. Plant Physiol., 2017. 175(2): p. 874-885 [PMID:28842549] Bresso EG,Chorostecki U,Rodriguez RE,Palatnik JF,Schommer C Spatial Control of Gene Expression by miR319-Regulated TCP Transcription Factors in Leaf Development. Plant Physiol., 2018. 176(2): p. 1694-1708 [PMID:29133375] Vadde BVL,Challa KR,Nath U The TCP4 transcription factor regulates trichome cell differentiation by directly activating GLABROUS INFLORESCENCE STEMS in Arabidopsis thaliana. Plant J., 2018. 93(2): p. 259-269 [PMID:29165850] Challa KR,Rath M,Nath U The CIN-TCP transcription factors promote commitment to differentiation in Arabidopsis leaf pavement cells via both auxin-dependent and independent pathways. PLoS Genet., 2019. 15(2): p. e1007988 [PMID:30742619]