PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

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: 210aa MW: 24209.6 Da PI: 9.5029

Description

MIKC_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.003G163900.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	94.5	4.8e-30	9	59	1	51
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 krien rqvtfskRrng+lKKA+ELSvLCdaeva+iifs++gklye+ss Gorai.003G163900.1 9 KRIENAASRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSTRGKLYEFSS 59 79***********************************************96 PP
2	K-box	71.9	1.9e-24	87	173	11	97
K-box 11 eakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkk 97 ++++++ +++++ + k+ie L++++ +llG++Le++sl+eL+qLe++Le+sl++iR++Kn l+++qie+l++ ek+l+een +Lr+ Gorai.003G163900.1 87 DQNTQNEKEDAQSMAKKIELLENSKQKLLGNGLEPCSLNELNQLETNLERSLSRIRERKNLLFRQQIEKLKQEEKRLEEENANLRQT 173 789**********************************************************************************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00432	1.1E-38	1	60	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS50066	31.539	1	61	IPR002100	Transcription factor, MADS-box
CDD	cd00265	6.49E-41	3	71	No hit	No description
PRINTS	PR00404	7.5E-31	3	23	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF55455	1.31E-31	3	73	IPR002100	Transcription factor, MADS-box
PROSITE pattern	PS00350	0	3	57	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	7.0E-26	10	57	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	7.5E-31	23	38	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	7.5E-31	38	59	IPR002100	Transcription factor, MADS-box
Pfam	PF01486	1.1E-22	89	174	IPR002487	Transcription factor, K-box
PROSITE profile	PS51297	14.091	90	180	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: 210 aa Download sequence Send to blast
MVRGKTQMKR IENAASRQVT FSKRRNGLLK KAFELSVLCD AEVALIIFST RGKLYEFSSA 60 SMSKTIERYE KREKDNTGIN NKLAAVDQNT QNEKEDAQSM AKKIELLENS KQKLLGNGLE 120 PCSLNELNQL ETNLERSLSR IRERKNLLFR QQIEKLKQEE KRLEEENANL RQTCGMKPSP 180 WSTSTEEETM EVETELFIGP PERRRIQNP*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5f28_A	7e-20	1	69	1	69	MEF2C
5f28_B	7e-20	1	69	1	69	MEF2C
5f28_C	7e-20	1	69	1	69	MEF2C
5f28_D	7e-20	1	69	1	69	MEF2C
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Mostly expressed in the outer layers of the root meristem (lateral root cap and epidermis) and in the central cylinder cells of mature roots. Also present in rosette leaves and seedlings and, to a lesser extent, in cauline leaves and flowers. Enriched in apices including the shoot apical meristem and developing leaf primordia. {ECO:0000269\|PubMed:11115127, ECO:0000269\|PubMed:12837945, ECO:0000269\|PubMed:12949148, ECO:0000269\|PubMed:16778081}.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor that promotes flowering, especially in response to vernalization by short periods of cold, in an FLC-inpedendent manner. {ECO:0000269\|PubMed:16778081}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Maintained at very low levels by the polycomb-group (PcG) proteins MSI1, CLF, and EMF2 via histone methylation (H3K27me3). Derepressed upon cold treatment (vernalization). {ECO:0000269\|PubMed:16778081}.

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_012471885.1	1e-149	PREDICTED: agamous-like MADS-box protein AGL19 isoform X1
Refseq	XP_012471886.1	1e-149	PREDICTED: agamous-like MADS-box protein AGL19 isoform X2
Refseq	XP_012471887.1	1e-149	PREDICTED: agamous-like MADS-box protein AGL19 isoform X2
Refseq	XP_012471888.1	1e-149	PREDICTED: agamous-like MADS-box protein AGL19 isoform X2
Swissprot	O82743	1e-72	AGL19_ARATH; Agamous-like MADS-box protein AGL19
TrEMBL	A0A0D2P207	1e-148	A0A0D2P207_GOSRA; Uncharacterized protein
STRING	Gorai.003G163900.1	1e-149	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM78	28	413

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G22950.1	5e-53	AGAMOUS-like 19

Link Out ? help Back to Top
Phytozome	Gorai.003G163900.1
Entrez Gene	105789171

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] 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] Suter L,Rüegg M,Zemp N,Hennig L,Widmer A Gene regulatory variation mediates flowering responses to vernalization along an altitudinal gradient in Arabidopsis. Plant Physiol., 2014. 166(4): p. 1928-42 [PMID:25339407]