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

GSBRNA2T00031186001

Common Name

GSBRNA2T00031186001, LOC106411145

Organism

Brassica napus

Taxonomic ID

3708

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica

Family

HD-ZIP

Protein Properties

Length: 841aa MW: 92172.6 Da PI: 6.4587

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00031186001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	58.9	8.6e-19	20	78	3	57
--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHC....TS-HHHHHHHHHHHHHHHHC CS Homeobox 3 kRttftkeqleeLeelFeknrypsaeereeLAkkl....gLterqVkvWFqNrRakekk 57 k ++t+eq+e+Le++++++++ps +r++L +++ +++ rq+kvWFqNrR +ek+ GSBRNA2T00031186001 20 KYVRYTPEQVEALERVYAECPKPSSLRRQQLIRECpilcNIEPRQIKVWFQNRRCREKQ 78 5678*****************************************************97 PP
2	START	172.1	3.5e-54	169	377	2	205
HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-SEEEEEEEECTT..E CS START 2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskvdsgealrasgvvdmvlallveellddkeqWdetlakaetlevissg..g 89 +aee+++e++ ka+ ++ Wv++ +++g++++ +++ s+++sg a+ra+g+v +++ v+e+l+d++ W ++++++etl vi +g g GSBRNA2T00031186001 169 IAEETLAEFLCKATGTAVDWVQMIGMKPGPDSIGIVAVSRNCSGIAARACGLVSLEPM-KVAEILKDRPSWFRDCRSVETLSVIPTGngG 257 7899****************************************************.8888888888***************** PP EEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--....-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--SS CS START 90 alqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe...sssvvRaellpSgiliepksnghskvtwvehvdlkgr 175 +++l++++ +a+++l++ Rdf+++Ry+ +l++g++v+++ S++ + p+ sss+vRa++l Sg+li+p+++g+s +++v+hvdl+ GSBRNA2T00031186001 258 TIELINTQIYAPTTLAAaRDFWTLRYSTSLEDGSYVVCEKSLTAATGGPNgplSSSFVRAKMLSSGFLIRPCDGGGSIIHIVDHVDLDVT 347 *********************************************99*********************************** PP XXHHHHHHHHHHHHHHHHHHHHHHTXXXXX CS START 176 lphwllrslvksglaegaktwvatlqrqce 205 +++++lr+l++s+ + ++k++va+l++ ++ GSBRNA2T00031186001 348 SVPEVLRPLYESSKILAQKMTVAALRHARQ 377 ***********************99875 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.60	7.7E-19	4	78	IPR009057	Homeodomain-like
PROSITE profile	PS50071	15.451	15	79	IPR001356	Homeobox domain
SMART	SM00389	4.2E-16	17	83	IPR001356	Homeobox domain
SuperFamily	SSF46689	1.24E-16	19	81	IPR009057	Homeodomain-like
CDD	cd00086	5.82E-17	20	80	No hit	No description
Pfam	PF00046	2.2E-16	21	78	IPR001356	Homeobox domain
CDD	cd14686	3.21E-6	72	111	No hit	No description
PROSITE profile	PS50848	24.922	159	360	IPR002913	START domain
CDD	cd08875	3.48E-70	163	379	No hit	No description
SuperFamily	SSF55961	5.22E-34	168	380	No hit	No description
SMART	SM00234	1.2E-51	168	378	IPR002913	START domain
Pfam	PF01852	1.7E-51	169	377	IPR002913	START domain
Gene3D	G3DSA:3.30.530.20	1.4E-18	204	373	IPR023393	START-like domain
SuperFamily	SSF55961	9.89E-5	416	498	No hit	No description
SuperFamily	SSF55961	9.89E-5	529	603	No hit	No description
Pfam	PF08670	1.3E-48	693	839	IPR013978	MEKHLA

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0008289	Molecular Function	lipid binding

Sequence ? help Back to Top
Protein Sequence Length: 841 aa Download sequence Send to blast
MMAHSMDDRD SPEKGFDSGK YVRYTPEQVE ALERVYAECP KPSSLRRQQL IRECPILCNI 60 EPRQIKVWFQ NRRCREKQRK ESARLQTVNR KLSAMNKLLM EENDRLQKQV SHLVYENGFM 120 KHRINTATGT TTDNGCESVV ASGQQRQQQN PTHQHPQRDA NNPAGLLSIA EETLAEFLCK 180 ATGTAVDWVQ MIGMKPGPDS IGIVAVSRNC SGIAARACGL VSLEPMKVAE ILKDRPSWFR 240 DCRSVETLSV IPTGNGGTIE LINTQIYAPT TLAAARDFWT LRYSTSLEDG SYVVCEKSLT 300 AATGGPNGPL SSSFVRAKML SSGFLIRPCD GGGSIIHIVD HVDLDVTSVP EVLRPLYESS 360 KILAQKMTVA ALRHARQIAQ ETSGEVQFSG GRQPAVLRTF SQRLCRGFND AVNGFADDGW 420 SPMSSDGGED ITIMINSSSS KFSGSQYGNS FLPSFGSGVL CAKASMLLQN VPPLVLIRFL 480 REHRAEWADY GVDAYCAASL RATPFAVPCV RTGGFPSNQV ILPLAQTLEH EEFLEVVRLG 540 GHAYSPEDMG LSRDMYLLQL CSGVDENVVG GCAQLVFAPI DESFADDAPL LPSGFRVIPL 600 DHKTSPNDHL SVNRTRDLAS SLDGSTKTDA ETNSRLVLTI AFQFTFDNHS RDNVATMARQ 660 YVRNVVGSIQ RVALAITPRP GSMQFPTSPE ALTLARWISR SYSIHTGANM FGADTQGCDG 720 DTLLKQLWNH SDAILCCSLK TNASPVFTFA NQAGLDMLET TLVALQDIML DKTLDDSGRK 780 ALCSEFAKIM QQGYANLPAG ICVSSMGRPV SYEQATVWKV LDDNESNHCL AFILVNWSFL 840 *

Sequence ? help Back to Top

Protein Sequence Length: 841 aa Download sequence Send to blast

MMAHSMDDRD SPEKGFDSGK YVRYTPEQVE ALERVYAECP KPSSLRRQQL IRECPILCNI  60
EPRQIKVWFQ NRRCREKQRK ESARLQTVNR KLSAMNKLLM EENDRLQKQV SHLVYENGFM  120
KHRINTATGT TTDNGCESVV ASGQQRQQQN PTHQHPQRDA NNPAGLLSIA EETLAEFLCK  180
ATGTAVDWVQ MIGMKPGPDS IGIVAVSRNC SGIAARACGL VSLEPMKVAE ILKDRPSWFR  240
DCRSVETLSV IPTGNGGTIE LINTQIYAPT TLAAARDFWT LRYSTSLEDG SYVVCEKSLT  300
AATGGPNGPL SSSFVRAKML SSGFLIRPCD GGGSIIHIVD HVDLDVTSVP EVLRPLYESS  360
KILAQKMTVA ALRHARQIAQ ETSGEVQFSG GRQPAVLRTF SQRLCRGFND AVNGFADDGW  420
SPMSSDGGED ITIMINSSSS KFSGSQYGNS FLPSFGSGVL CAKASMLLQN VPPLVLIRFL  480
REHRAEWADY GVDAYCAASL RATPFAVPCV RTGGFPSNQV ILPLAQTLEH EEFLEVVRLG  540
GHAYSPEDMG LSRDMYLLQL CSGVDENVVG GCAQLVFAPI DESFADDAPL LPSGFRVIPL  600
DHKTSPNDHL SVNRTRDLAS SLDGSTKTDA ETNSRLVLTI AFQFTFDNHS RDNVATMARQ  660
YVRNVVGSIQ RVALAITPRP GSMQFPTSPE ALTLARWISR SYSIHTGANM FGADTQGCDG  720
DTLLKQLWNH SDAILCCSLK TNASPVFTFA NQAGLDMLET TLVALQDIML DKTLDDSGRK  780
ALCSEFAKIM QQGYANLPAG ICVSSMGRPV SYEQATVWKV LDDNESNHCL AFILVNWSFL  840
*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.1825	0.0	seed

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor involved in the determination of adaxial-abaxial polarity in ovule primordium. Specifies adaxial leaf fates. Binds to the DNA sequence 5'-GTAAT[GC]ATTAC-3'. {ECO:0000269\|PubMed:11395776, ECO:0000269\|PubMed:15598805, ECO:0000269\|PubMed:17900520, ECO:0000269\|PubMed:9747806}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00031186001

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin. Repressed by miR165 and miR166. {ECO:0000269\|PubMed:14999284, ECO:0000269\|PubMed:16033795, ECO:0000269\|PubMed:17237362}.

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	AK353258	0.0	AK353258.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-39-H09.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013707293.1	0.0	homeobox-leucine zipper protein ATHB-9
Swissprot	O04292	0.0	ATBH9_ARATH; Homeobox-leucine zipper protein ATHB-9
TrEMBL	A0A078F944	0.0	A0A078F944_BRANA; BnaC05g23470D protein
TrEMBL	A0A3P6FIK3	0.0	A0A3P6FIK3_BRAOL; Uncharacterized protein
STRING	Bra032394.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4256	26	53

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G30490.1	0.0	HD-ZIP family protein

Link Out ? help Back to Top
Entrez Gene	106411145

Publications ? help Back to Top
Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293] Jia X, et al. Functional plasticity of miR165/166 in plant development revealed by small tandem target mimic. Plant Sci., 2015. 233: p. 11-21 [PMID:25711809] Yamada T,Sasaki Y,Hashimoto K,Nakajima K,Gasser CS CORONA, PHABULOSA and PHAVOLUTA collaborate with BELL1 to confine WUSCHEL expression to the nucellus in Arabidopsis ovules. Development, 2016. 143(3): p. 422-6 [PMID:26700684] Wójcik AM,Nodine MD,Gaj MD miR160 and miR166/165 Contribute to the LEC2-Mediated Auxin Response Involved in the Somatic Embryogenesis Induction in Arabidopsis. Front Plant Sci, 2017. 8: p. 2024 [PMID:29321785]