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.004G169000.1

Common Name

B456_004G169000, LOC105791736

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

MIKC_MADS

Protein Properties

Length: 252aa MW: 28775.9 Da PI: 8.7039

Description

MIKC_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.004G169000.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	88.6	3.4e-28	9	59	1	51
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 krien rqvtfskRr+g+lKKA+EL +LCdaevaviifs+tgkl+e+ss Gorai.004G169000.1 9 KRIENANSRQVTFSKRRAGLLKKAKELAILCDAEVAVIIFSNTGKLFEFSS 59 79***********************************************96 PP
2	K-box	68.1	3e-23	82	173	9	100
K-box 9 leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 +e++ +++ ++e+++Lk+e+ +Lq +q +llG++L+s slkeL+ LeqqL ++l ++++kK++ll+eq+e+++ +e+++ en++Lr+++e Gorai.004G169000.1 82 VEHKAEKQVCKEADNLKDEVAKLQMKQLQLLGKNLTSVSLKELEVLEQQLSEGLLSVKEKKEQLLMEQLEQSRLQEQRVMLENETLRRQVE 172 67788899*********************************************************************************98 PP K-box 100 e 100 e Gorai.004G169000.1 173 E 173 7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50066	32.52	1	61	IPR002100	Transcription factor, MADS-box
SMART	SM00432	8.4E-42	1	60	IPR002100	Transcription factor, MADS-box
CDD	cd00265	4.42E-42	2	72	No hit	No description
SuperFamily	SSF55455	1.18E-32	2	83	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	4.4E-29	3	23	IPR002100	Transcription factor, MADS-box
PROSITE pattern	PS00350	0	3	57	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	7.2E-26	10	57	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	4.4E-29	23	38	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	4.4E-29	38	59	IPR002100	Transcription factor, MADS-box
Pfam	PF01486	1.5E-17	83	171	IPR002487	Transcription factor, K-box
PROSITE profile	PS51297	13.102	87	177	IPR002487	Transcription factor, K-box

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 252 aa Download sequence Send to blast
MGRGKIEIKR IENANSRQVT FSKRRAGLLK KAKELAILCD AEVAVIIFSN TGKLFEFSSS 60 GMKKTFSRYN KCLQGSTEMA LVEHKAEKQV CKEADNLKDE VAKLQMKQLQ LLGKNLTSVS 120 LKELEVLEQQ LSEGLLSVKE KKEQLLMEQL EQSRLQEQRV MLENETLRRQ VEELRGFFPS 180 TDHLVRSYLE YYPVERKNSL MSHNVRGPDV TCACNLEKGD SDTTLYLGLP SDHHKRKKPE 240 RESHSNDSES Q*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5f28_A	3e-21	1	83	1	86	MEF2C
5f28_B	3e-21	1	83	1	86	MEF2C
5f28_C	3e-21	1	83	1	86	MEF2C
5f28_D	3e-21	1	83	1	86	MEF2C
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Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: During the reproductive phase, accumulates in immature buds and at the base of the floral organs, and in the receptacle, ovules, anther filaments, and stigma and style of open flowers. Accumulates before fertilization in the cytoplasm in the cells of the egg apparatus and moves into the nucleus during early stages of development following fertilization in the suspensor, embryo, and endosperm, mainly double fertilization derived tissues (at protein level). Highly expressed in developing embryos. In young seedlings, present in the shoot and root apices, lateral root primordia and throughout the vascular system. {ECO:0000269\|PubMed:10318690, ECO:0000269\|PubMed:10662856, ECO:0000269\|PubMed:15686521, ECO:0000269\|PubMed:17521410, ECO:0000269\|PubMed:8953767}.
Uniprot	TISSUE SPECIFICITY: Expressed at low levels in flowers and siliques. Also present in seedlings. Detected during embryogenesis and accumulates during early seed development (at protein level). Expressed in shoot apices and the base of leaf petioles. {ECO:0000269\|PubMed:10318690, ECO:0000269\|PubMed:10662856, ECO:0000269\|PubMed:12837945, ECO:0000269\|PubMed:12949148, ECO:0000269\|PubMed:15686521, ECO:0000269\|PubMed:16028119, ECO:0000269\|PubMed:17521410, ECO:0000269\|PubMed:8953767}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor involved in the negative regulation of flowering, probably through the photoperiodic pathway. Acts as both an activator and a repressor of transcription. Binds DNA in a sequence-specific manner in large CArG motif 5'-CC (A/T)8 GG-3'. Participates probably in the regulation of programs active during the early stages of embryo development. Prevents premature perianth senescence and abscission, fruits development and seed desiccation. Stimulates the expression of at least DTA4, LEC2, FUS3, ABI3, AT4G38680/CSP2 and GRP2B/CSP4. Can enhance somatic embryo development in vitro. {ECO:0000269\|PubMed:10318690, ECO:0000269\|PubMed:10662856, ECO:0000269\|PubMed:12226488, ECO:0000269\|PubMed:12743119, ECO:0000269\|PubMed:14615187, ECO:0000269\|PubMed:15084721, ECO:0000269\|PubMed:15686521, ECO:0000269\|PubMed:17521410, ECO:0000269\|PubMed:18305206, ECO:0000269\|PubMed:19269998, ECO:0000269\|PubMed:19767455, ECO:0000269\|PubMed:8953767}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin (2,4-D). Feedback loop leading to direct down-regulation by itself. {ECO:0000269\|PubMed:15686521}.

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	KC155662	0.0	KC155662.1 Gossypium hirsutum MADS box protein MADS67 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012475397.1	0.0	PREDICTED: agamous-like MADS-box protein AGL15
Refseq	XP_016681981.1	0.0	PREDICTED: agamous-like MADS-box protein AGL15
Swissprot	Q38847	1e-92	AGL15_ARATH; Agamous-like MADS-box protein AGL15
TrEMBL	A0A0D2S133	0.0	A0A0D2S133_GOSRA; Uncharacterized protein
TrEMBL	A0A1U8IV79	0.0	A0A1U8IV79_GOSHI; agamous-like MADS-box protein AGL15
STRING	Gorai.004G169000.1	0.0	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM7518	25	38

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G13790.1	2e-73	AGAMOUS-like 15

Link Out ? help Back to Top
Phytozome	Gorai.004G169000.1
Entrez Gene	105791736

Publications ? help Back to Top
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] Zheng Q,Zheng Y,Perry SE Decreased GmAGL15 expression and reduced ethylene synthesis may contribute to reduced somatic embryogenesis in a poorly embryogenic cultivar of Glycine max. Plant Signal Behav, 2014. [PMID:23838957] Perry SE,Zheng Q,Zheng Y Transcriptome analysis indicates that GmAGAMOUS-Like 15 may enhance somatic embryogenesis by promoting a dedifferentiated state. Plant Signal Behav, 2016. 11(7): p. e1197463 [PMID:27302197] Cosio C, et al. The class III peroxidase PRX17 is a direct target of the MADS-box transcription factor AGAMOUS-LIKE15 (AGL15) and participates in lignified tissue formation. New Phytol., 2017. 213(1): p. 250-263 [PMID:27513887] Zheng Q,Zheng Y,Ji H,Burnie W,Perry SE Gene Regulation by the AGL15 Transcription Factor Reveals Hormone Interactions in Somatic Embryogenesis. Plant Physiol., 2016. 172(4): p. 2374-2387 [PMID:27794101] Chen N,Veerappan V,Abdelmageed H,Kang M,Allen RD HSI2/VAL1 Silences AGL15 to Regulate the Developmental Transition from Seed Maturation to Vegetative Growth in Arabidopsis. Plant Cell, 2018. 30(3): p. 600-619 [PMID:29475938]