PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Previous version: v3.0 v4.0

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Solyc07g053610.2.1

Common Name

LOC101253299

Organism

Solanum lycopersicum

Taxonomic ID

4081

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon

Family

HB-other

Protein Properties

Length: 1783aa MW: 201316 Da PI: 5.3465

Description

HB-other family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Solyc07g053610.2.1	genome	ITAG	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	56.5	4.7e-18	46	100	3	57
--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHHC CS Homeobox 3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakekk 57 kR t++qle+Le+ ++ + yps++ r+eL+ klgL++rq ++WF+ rR k++k Solyc07g053610.2.1 46 KRKMKTASQLEILEKTYATDTYPSEALRAELSVKLGLSDRQLQMWFCHRRLKDRK 100 89999************************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.60	9.6E-17	29	100	IPR009057	Homeodomain-like
SuperFamily	SSF46689	2.1E-15	38	100	IPR009057	Homeodomain-like
PROSITE profile	PS50071	16.439	41	101	IPR001356	Homeobox domain
SMART	SM00389	3.3E-17	43	105	IPR001356	Homeobox domain
CDD	cd00086	1.98E-13	44	100	No hit	No description
Pfam	PF00046	1.2E-15	46	100	IPR001356	Homeobox domain
PROSITE profile	PS50827	17.031	579	638	IPR018501	DDT domain
SMART	SM00571	1.7E-23	579	638	IPR018501	DDT domain
Pfam	PF02791	4.6E-19	580	635	IPR018501	DDT domain
Pfam	PF05066	6.4E-15	759	826	IPR007759	HB1/Asxl, restriction endonuclease HTH domain
Pfam	PF15612	1.8E-8	967	1009	IPR028942	WHIM1 domain
Pfam	PF15613	5.3E-12	1148	1220	IPR028941	WHIM2 domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0010228	Biological Process	vegetative to reproductive phase transition of meristem
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 1783 aa Download sequence Send to blast
MESDGGGNGE ADVPMAVAAA ATSDAGVNGS CDAGKKKVPE GEPKVKRKMK TASQLEILEK 60 TYATDTYPSE ALRAELSVKL GLSDRQLQMW FCHRRLKDRK ATPVKRQKKE EVSPAAMISS 120 GGQGDEMAVS GEIGKDHVSG SGSRASPIGL MDLQVQQQLH QRVVHRPGTA VPRFRPEMPT 180 LKRYYEPPQA ISELRAIAFV EAQLGEPLRE DGPILGMEFD PLPPGAFGAP IVAAMQHKPA 240 GRPFEAQIYE RPDVNAIKGT TRTLREYQFL PEQPSNRSDS YEQSVPSHHY RSTEVQSTRA 300 ILSTGRSFIH GSEQVASGCS IPGLIPTLNL LPQGRQGHIS PASAEVEAVP QRSLVNIEVE 360 ASYSGQPMMA LESPFMSSDK RVIHDEERLE RKRKSEEARI AREVEAHEKR IRKELEKQDM 420 LQRKREEQMR KDMERQDRER RKEEERLLRE KLREEERYQR EQRREMERRQ KFLQKESMKA 480 ERMRLKEEMR REKEVARLKA ANVRANARRI AKESTELIED ERLELMELAA SKKGSPSTLS 540 LDSETLQNLE AFRDLLNEFP PKSVCLRKPF EVEPWTCSEE DVGNLFMVWR FLITFSDVLH 600 LWPFTLDEFV QAFHDYDPRL LAEIHIALLK LIIKDIEDVA RTPASAVGAN PNVNPGGGHP 660 DIVEGAYAWG FDIRSWQSHL NALTWPEILR QFALSAGFGP KLKKQSVEPA YPRDENECNN 720 GADIISNLRS GVAAEKAVAK MQERGFSNLR RSRHRLTPGT VKFAAFHVLS LEGSKGLNIL 780 DVAEKIQKSG LRDLRTSKTP EASISAALSR DTKLFERTAP STYCVRDPYR KDPGDANAIL 840 SAAREKIRMF KNEYVNGEET EDVEKEVERD DEFESDAADD PEVDDLVSEL KFAETPETQK 900 IDRTDGRSSS FDLTQTPEDL CMQNSTAMMH SVNFGELKAT AGDQSTASGV EAVNLDQEDT 960 VIDENNAGQR WVQGLMEGEY SDLTVEERLH ALVALIGIAN EGNSVRLILE ERLEAASALK 1020 KQIWAEAQLD KRRFKEEFLL KVQYPSVRSN TEQICSVTSM EARQSPLHAV GHNEVADIPS 1080 LQQEAMHKLP DEPNNPSNVA VEKTCQMQET YGGQDNSQPQ HFAYVAEKSR SQLKAYIGHR 1140 AEETFVYRSL PLGQDRRRNR YWQFITSPSR NDPGSGRIFV ELRDGRWRLI DSEKDFNCLM 1200 ASLDIRGIRE SHLHSMLQNI EATFKATVRK HKYTEVELDD SVKEHTSETV PSIDYCSNTG 1260 GSKSTICLSN QETSEPSTSF LLGFGRNKME DSDALRRYAD LEKWMWEECV HPQFLCARKY 1320 GRMRCENLIS TCNNCHDTYF LEDKHCPSCH RTFSPTKSSY FLEHVALCKE KLEDLFWPLC 1380 IMDSLPPLRV RLLRAQLASV EACIPPEALQ PVWSELYRRS WGTKLHIASA AGDLLQILTL 1440 LEGAIKREYL ISNYETTNEL LGAVSNSNLD GMVAVLPWVP HTTSAVALRL MELDCSLCYT 1500 QQQKAESLKD EESADFTMFK TNYAQVKRAT RVISAEAREY EKLEPDYSVK VGSGHANSGQ 1560 GRNRVRGGAH CRVHGGKSQR KVNASRSDSA QRSSTKNSDR LGHLPAWKGQ DRGKGRRKRG 1620 RRSVRNRQKP VKNVEEVSPE EVPITSQQDW NDVEDEETPQ FEAPDNDSDS GTSGSEDYKG 1680 QTTVNDYEDL MVADYGSFSG RNDHASTSVS YNISQRYTET AEDGIGDYED DHDEEDEEDG 1740 LANKNVQRYF DGESDDEGDR FMDEDLVETP NKDSESSSEY SD*

Sequence ? help Back to Top

Protein Sequence Length: 1783 aa Download sequence Send to blast

MESDGGGNGE ADVPMAVAAA ATSDAGVNGS CDAGKKKVPE GEPKVKRKMK TASQLEILEK  60
TYATDTYPSE ALRAELSVKL GLSDRQLQMW FCHRRLKDRK ATPVKRQKKE EVSPAAMISS  120
GGQGDEMAVS GEIGKDHVSG SGSRASPIGL MDLQVQQQLH QRVVHRPGTA VPRFRPEMPT  180
LKRYYEPPQA ISELRAIAFV EAQLGEPLRE DGPILGMEFD PLPPGAFGAP IVAAMQHKPA  240
GRPFEAQIYE RPDVNAIKGT TRTLREYQFL PEQPSNRSDS YEQSVPSHHY RSTEVQSTRA  300
ILSTGRSFIH GSEQVASGCS IPGLIPTLNL LPQGRQGHIS PASAEVEAVP QRSLVNIEVE  360
ASYSGQPMMA LESPFMSSDK RVIHDEERLE RKRKSEEARI AREVEAHEKR IRKELEKQDM  420
LQRKREEQMR KDMERQDRER RKEEERLLRE KLREEERYQR EQRREMERRQ KFLQKESMKA  480
ERMRLKEEMR REKEVARLKA ANVRANARRI AKESTELIED ERLELMELAA SKKGSPSTLS  540
LDSETLQNLE AFRDLLNEFP PKSVCLRKPF EVEPWTCSEE DVGNLFMVWR FLITFSDVLH  600
LWPFTLDEFV QAFHDYDPRL LAEIHIALLK LIIKDIEDVA RTPASAVGAN PNVNPGGGHP  660
DIVEGAYAWG FDIRSWQSHL NALTWPEILR QFALSAGFGP KLKKQSVEPA YPRDENECNN  720
GADIISNLRS GVAAEKAVAK MQERGFSNLR RSRHRLTPGT VKFAAFHVLS LEGSKGLNIL  780
DVAEKIQKSG LRDLRTSKTP EASISAALSR DTKLFERTAP STYCVRDPYR KDPGDANAIL  840
SAAREKIRMF KNEYVNGEET EDVEKEVERD DEFESDAADD PEVDDLVSEL KFAETPETQK  900
IDRTDGRSSS FDLTQTPEDL CMQNSTAMMH SVNFGELKAT AGDQSTASGV EAVNLDQEDT  960
VIDENNAGQR WVQGLMEGEY SDLTVEERLH ALVALIGIAN EGNSVRLILE ERLEAASALK  1020
KQIWAEAQLD KRRFKEEFLL KVQYPSVRSN TEQICSVTSM EARQSPLHAV GHNEVADIPS  1080
LQQEAMHKLP DEPNNPSNVA VEKTCQMQET YGGQDNSQPQ HFAYVAEKSR SQLKAYIGHR  1140
AEETFVYRSL PLGQDRRRNR YWQFITSPSR NDPGSGRIFV ELRDGRWRLI DSEKDFNCLM  1200
ASLDIRGIRE SHLHSMLQNI EATFKATVRK HKYTEVELDD SVKEHTSETV PSIDYCSNTG  1260
GSKSTICLSN QETSEPSTSF LLGFGRNKME DSDALRRYAD LEKWMWEECV HPQFLCARKY  1320
GRMRCENLIS TCNNCHDTYF LEDKHCPSCH RTFSPTKSSY FLEHVALCKE KLEDLFWPLC  1380
IMDSLPPLRV RLLRAQLASV EACIPPEALQ PVWSELYRRS WGTKLHIASA AGDLLQILTL  1440
LEGAIKREYL ISNYETTNEL LGAVSNSNLD GMVAVLPWVP HTTSAVALRL MELDCSLCYT  1500
QQQKAESLKD EESADFTMFK TNYAQVKRAT RVISAEAREY EKLEPDYSVK VGSGHANSGQ  1560
GRNRVRGGAH CRVHGGKSQR KVNASRSDSA QRSSTKNSDR LGHLPAWKGQ DRGKGRRKRG  1620
RRSVRNRQKP VKNVEEVSPE EVPITSQQDW NDVEDEETPQ FEAPDNDSDS GTSGSEDYKG  1680
QTTVNDYEDL MVADYGSFSG RNDHASTSVS YNISQRYTET AEDGIGDYED DHDEEDEEDG  1740
LANKNVQRYF DGESDDEGDR FMDEDLVETP NKDSESSSEY SD*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Les.9109	0.0	flower\| fruit\| stem\| trichome

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Highly expressed in growing tissues such as inflorescence and flower meristems, young leaves and floral organs. Expressed in roots, rosette and cauline leaves, stems, flowers, inflorescences and siliques. {ECO:0000269\|PubMed:22694359}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional regulator required for the maintenance of the plant vegetative phase. In association with CHR11 or CHR17 may prevent the early activation of the vegetative-to-reproductive transition by regulating key genes that contribute to flower timing, such as FT, SEP1, SEP3, AGL8/FUL, SOC1 and FLC (PubMed:22694359). Involved in the transcriptional regulation of seed-specific gene expression (PubMed:23872538). {ECO:0000269\|PubMed:22694359, ECO:0000269\|PubMed:23872538}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Solyc07g053610.2.1

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	AC254006	2e-06	Solanum lycopersicum strain Heinz 1706 chromosome 9 clone sle-46g1 map 9, complete sequence
GenBank	AC254019	2e-06	Solanum lycopersicum strain Heinz 1706 chromosome 9 clone sle-32f8 map 9, complete sequence
GenBank	AC254030	2e-06	Solanum lycopersicum strain Heinz 1706 chromosome 9 clone sle-35c12 map 9, complete sequence

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004243382.1	0.0	homeobox-DDT domain protein RLT2
Swissprot	Q9FFH1	0.0	RLT2_ARATH; Homeobox-DDT domain protein RLT2
TrEMBL	A0A3Q7HEL9	0.0	A0A3Q7HEL9_SOLLC; Uncharacterized protein
STRING	Solyc07g053610.2.1	0.0	(Solanum lycopersicum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA2142	23	52
Representative plant	OGRP1577	16	34

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G44180.1	0.0	Homeodomain-like transcriptional regulator

Link Out ? help Back to Top
Phytozome	Solyc07g053610.2.1
Entrez Gene	101253299

Publications ? help Back to Top
Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments. Theor. Appl. Genet., 2005. 112(1): p. 72-84 [PMID:16208505]