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

Gh_A01G0414

Organism

Gossypium hirsutum

Taxonomic ID

3635

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: 446aa MW: 48342.7 Da PI: 6.9919

Description

TCP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gh_A01G0414	genome	NAU-NBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	TCP	123.9	1.8e-38	35	156	2	119
TCP 2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgt........ssssaseceaesssssasnsssg... 88 +g+kdrhsk++T++g+RdRRvRlsa++a++f+d+qd+LG+d++sk+++WL+++akpai+el+++ + + +s ++sn++ + Gh_A01G0414 35 TGRKDRHSKVCTAKGPRDRRVRLSAHTAIQFYDVQDRLGYDRPSKAVDWLIKKAKPAIDELAELppwnpetlN--------TTTSIAKTSNQEDQnat 124 79**************************************************************554433331........22222222222222111 PP TCP 89 .kaaksaakskksqksaasalnlakesrakar 119 + ++++ + ++++s + + nla+ s + r Gh_A01G0414 125 tATDNDKPYQFHTNHSGNLVENLAAGSGTRRR 156 13444444566666666666666665554333 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF03634	2.3E-34	35	142	IPR005333	Transcription factor, TCP
PROSITE profile	PS51369	34.543	37	95	IPR017887	Transcription factor TCP subgroup

Sequence ? help Back to Top
Protein Sequence Length: 446 aa Download sequence Send to blast
MGDSHHQAAT SSRLGIRHSG GEIVEVQGGH IVRSTGRKDR HSKVCTAKGP RDRRVRLSAH 60 TAIQFYDVQD RLGYDRPSKA VDWLIKKAKP AIDELAELPP WNPETLNTTT SIAKTSNQED 120 QNATTATDND KPYQFHTNHS GNLVENLAAG SGTRRRTATI MGNEVQSLQQ QEMGDNPNNN 180 SGFLPPSLVS DEIADTIKSF FPLGASSETP SSSIQFQNYP PDLLSRTSSH SQDLRLSLQS 240 FPEPILLHHH HHHAQAATAQ AHHSEPVLFS GASSLAGFDG SSAGWEHHHQ HPAEIGRFQR 300 LFAWNNSGAA ADSSGGGGAG GSSGVGGGFI FGTPPPQSLP TAFGQNSQLF SQRGPLQSSN 360 TPLVRAWIDQ PISTTDQHQH QHHHHQQHHH HQIPENIHHH AALSGIGFTT PGVFSGFRVP 420 ARIQGEEDEH DSIANKLSSA SSDSHH

Sequence ? help Back to Top

Protein Sequence Length: 446 aa Download sequence Send to blast

MGDSHHQAAT SSRLGIRHSG GEIVEVQGGH IVRSTGRKDR HSKVCTAKGP RDRRVRLSAH  60
TAIQFYDVQD RLGYDRPSKA VDWLIKKAKP AIDELAELPP WNPETLNTTT SIAKTSNQED  120
QNATTATDND KPYQFHTNHS GNLVENLAAG SGTRRRTATI MGNEVQSLQQ QEMGDNPNNN  180
SGFLPPSLVS DEIADTIKSF FPLGASSETP SSSIQFQNYP PDLLSRTSSH SQDLRLSLQS  240
FPEPILLHHH HHHAQAATAQ AHHSEPVLFS GASSLAGFDG SSAGWEHHHQ HPAEIGRFQR  300
LFAWNNSGAA ADSSGGGGAG GSSGVGGGFI FGTPPPQSLP TAFGQNSQLF SQRGPLQSSN  360
TPLVRAWIDQ PISTTDQHQH QHHHHQQHHH HQIPENIHHH AALSGIGFTT PGVFSGFRVP  420
ARIQGEEDEH DSIANKLSSA SSDSHH

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5zkt_A	1e-20	42	95	1	54	Putative transcription factor PCF6
5zkt_B	1e-20	42	95	1	54	Putative transcription factor PCF6
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Ghi.3203	0.0	boll\| ovule

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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016702515.1	0.0	PREDICTED: transcription factor TCP4-like
Swissprot	Q8LPR5	1e-112	TCP4_ARATH; Transcription factor TCP4
TrEMBL	A0A1U8KJ78	0.0	A0A1U8KJ78_GOSHI; transcription factor TCP4-like
STRING	Gorai.002G064500.1	0.0	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2408	27	71

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G15030.3	1e-110	TCP family protein

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] 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]