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.002G112200.1

Common Name

B456_002G112200, LOC105783168

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

SBP

Protein Properties

Length: 1082aa MW: 119355 Da PI: 8.4372

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.002G112200.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	131.1	4e-41	151	228	1	78
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 +Cqv++C++dls+ak+yhrrhkvCe+hska+++lv++++qrfCqqCsrfh lsefDe+krsCrrrLa+hn+rrrk+q+ Gorai.002G112200.1 151 MCQVDNCKEDLSNAKDYHRRHKVCEIHSKATKALVEKQMQRFCQQCSRFHPLSEFDEGKRSCRRRLAGHNRRRRKTQP 228 6**************************************************************************997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1100.10	4.3E-34	146	213	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	32.052	149	226	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	1.7E-37	150	230	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	5.0E-30	152	225	IPR004333	Transcription factor, SBP-box
CDD	cd00204	1.95E-7	829	971	No hit	No description
SuperFamily	SSF48403	6.22E-7	829	993	IPR020683	Ankyrin repeat-containing domain
Gene3D	G3DSA:1.25.40.20	2.1E-5	829	972	IPR020683	Ankyrin repeat-containing domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0042742	Biological Process	defense response to bacterium
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0005886	Cellular Component	plasma membrane
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 1082 aa Download sequence Send to blast
MEDAGAQVAP PLYIHQALAS RFCDPPSLPR KRDLSYQASD FLYQNPSQQR VANPRDNWNP 60 KQWEWDAVRF IAKPLNTGIL QAGTATAEQR KKGHVNGNEN SITSKNATAA NGDDERLQLN 120 LGGGLNSVEE PVSRPNKKVR GGSPGSTSYP MCQVDNCKED LSNAKDYHRR HKVCEIHSKA 180 TKALVEKQMQ RFCQQCSRFH PLSEFDEGKR SCRRRLAGHN RRRRKTQPED VTSRLLLPVN 240 RDNAGNGSLD IVNLLTLLAR TQGKTEEKSI NPSPVPNRDQ LLQILSKINS LPLPMELAAK 300 LPNVGVLNRK SQEQPSLGNQ NQLNGKNTSS PSTVDLLAAL SASLTSSSSD ALAMLSQRSS 360 QSSDSQKTKS ICPDNVAASS SLNRAPLEFT SVGGERSSTS YQSPVEDSEC QIQETRANLP 420 LQLFSSSPED DSPPMLASSR KYFSSDSSNP MEERSPSSSP VVQKFFPMHS TPEAVKYEKV 480 PIGRHANTNA ETSRAHGSII PLELFSGSKR GTGHGSFQHF PSQAGYTSSS GSDHSPPSLN 540 SDAQDRTGRI IFKLFDKDPS HFPGTLRTQI YNWLSNSPSE MESYIRPGCV VLSVYVSMPA 600 AAWEQLEGNL LRYVNCLLQD SDSNFWRKAR FLVHTGNRQL ASHKDGKIHL CKSWLSWSSP 660 ELISVSPLAV VSGQETSLLV RGRNLTNPGT EIHCAYMGGY SSMQINGSTD KGASYDEVNM 720 GSFKIQVPSP KALGRCFIEV ENGFKGNSFP IIIADAAICK ELRLLESELD TEAKASDIIS 780 EEHAYDSHRP RSREEVLHFL NELGWLFQRS TAPLPKSSDH SLRRFKFLLM FSVESDYCAL 840 VKVLLDMLVE SNLDLDDLSK DSLAMLSEIQ LLTRAVKRRC RKMADLLIHY SISSNDGNSK 900 KYIFPPNLEG AGGITPLHLA ACTSGSDDMV DVLTNDPQEI GLTCWSSLLD ANGQSPYAYA 960 MMRNNHSYNK LVAGKYADRR NGQFSLTIGV EDQHSGVSAV QLNKISLQFR QDRRSCAKCA 1020 VVATRSNNRF PGSQGLLQRP YVHSMLAIAA VCVCVCLFLR GSPNIGRVSP FKWENLDFGT 1080 I*

Sequence ? help Back to Top

Protein Sequence Length: 1082 aa Download sequence Send to blast

MEDAGAQVAP PLYIHQALAS RFCDPPSLPR KRDLSYQASD FLYQNPSQQR VANPRDNWNP  60
KQWEWDAVRF IAKPLNTGIL QAGTATAEQR KKGHVNGNEN SITSKNATAA NGDDERLQLN  120
LGGGLNSVEE PVSRPNKKVR GGSPGSTSYP MCQVDNCKED LSNAKDYHRR HKVCEIHSKA  180
TKALVEKQMQ RFCQQCSRFH PLSEFDEGKR SCRRRLAGHN RRRRKTQPED VTSRLLLPVN  240
RDNAGNGSLD IVNLLTLLAR TQGKTEEKSI NPSPVPNRDQ LLQILSKINS LPLPMELAAK  300
LPNVGVLNRK SQEQPSLGNQ NQLNGKNTSS PSTVDLLAAL SASLTSSSSD ALAMLSQRSS  360
QSSDSQKTKS ICPDNVAASS SLNRAPLEFT SVGGERSSTS YQSPVEDSEC QIQETRANLP  420
LQLFSSSPED DSPPMLASSR KYFSSDSSNP MEERSPSSSP VVQKFFPMHS TPEAVKYEKV  480
PIGRHANTNA ETSRAHGSII PLELFSGSKR GTGHGSFQHF PSQAGYTSSS GSDHSPPSLN  540
SDAQDRTGRI IFKLFDKDPS HFPGTLRTQI YNWLSNSPSE MESYIRPGCV VLSVYVSMPA  600
AAWEQLEGNL LRYVNCLLQD SDSNFWRKAR FLVHTGNRQL ASHKDGKIHL CKSWLSWSSP  660
ELISVSPLAV VSGQETSLLV RGRNLTNPGT EIHCAYMGGY SSMQINGSTD KGASYDEVNM  720
GSFKIQVPSP KALGRCFIEV ENGFKGNSFP IIIADAAICK ELRLLESELD TEAKASDIIS  780
EEHAYDSHRP RSREEVLHFL NELGWLFQRS TAPLPKSSDH SLRRFKFLLM FSVESDYCAL  840
VKVLLDMLVE SNLDLDDLSK DSLAMLSEIQ LLTRAVKRRC RKMADLLIHY SISSNDGNSK  900
KYIFPPNLEG AGGITPLHLA ACTSGSDDMV DVLTNDPQEI GLTCWSSLLD ANGQSPYAYA  960
MMRNNHSYNK LVAGKYADRR NGQFSLTIGV EDQHSGVSAV QLNKISLQFR QDRRSCAKCA  1020
VVATRSNNRF PGSQGLLQRP YVHSMLAIAA VCVCVCLFLR GSPNIGRVSP FKWENLDFGT  1080
I*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul4_A	2e-32	142	225	1	84	squamosa promoter binding protein-like 4
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	873	878	RAVKRR

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Gra.1300	0.0	flower\|seedling\| flowering

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in vasculature of aerial parts. Expressed in cotyledons and leaf petioles. {ECO:0000269\|PubMed:15703061}.

Functional Description ? help Back to Top
Source	Description
UniProt	Trans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3' (By similarity). May play a role in plant development. {ECO:0000250, ECO:0000269\|PubMed:15703061}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00155	DAP	Transfer from AT1G20980	Download

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	KJ622322	0.0	KJ622322.1 Gossypium hirsutum SQUAMOSA promoter binding-like transcription factor (SPL14) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012463909.1	0.0	PREDICTED: squamosa promoter-binding-like protein 14
Refseq	XP_012463917.1	0.0	PREDICTED: squamosa promoter-binding-like protein 14
Refseq	XP_012463926.1	0.0	PREDICTED: squamosa promoter-binding-like protein 14
Swissprot	Q8RY95	0.0	SPL14_ARATH; Squamosa promoter-binding-like protein 14
TrEMBL	A0A0D2R456	0.0	A0A0D2R456_GOSRA; Uncharacterized protein
STRING	Gorai.002G112200.1	0.0	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM3999	25	54

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G20980.1	0.0	squamosa promoter binding protein-like 14

Link Out ? help Back to Top
Phytozome	Gorai.002G112200.1
Entrez Gene	105783168

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] Jorgensen SA,Preston JC Differential SPL gene expression patterns reveal candidate genes underlying flowering time and architectural differences in Mimulus and Arabidopsis. Mol. Phylogenet. Evol., 2014. 73: p. 129-39 [PMID:24508602] Liu J, et al. Characterizing Variation of Branch Angle and Genome-Wide Association Mapping in Rapeseed (Brassica napus L.). Front Plant Sci, 2016. 7: p. 21 [PMID:26870051]