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

KN540062.1_FGP003

Organism

Oryza longistaminata

Taxonomic ID

4528

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

C3H

Protein Properties

Length: 638aa MW: 74310.1 Da PI: 9.0012

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
KN540062.1_FGP003	genome	BGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	25.4	2.4e-08	619	636	9	26
GGGTS--TTTTT-SS-SS CS zf-CCCH 9 fartGtCkyGdrCkFaHg 26 +++ G+C+yG++CkF H+ KN540062.1_FGP003 619 YQQQGWCPYGENCKFVHD 636 8999*************7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.720.30	5.1E-7	65	108	IPR003034	SAP domain
SuperFamily	SSF68906	4.4E-6	66	108	No hit	No description
Pfam	PF02037	2.2E-7	73	107	IPR003034	SAP domain
PROSITE profile	PS50800	8.588	73	107	IPR003034	SAP domain
Gene3D	G3DSA:4.10.1000.10	9.4E-7	608	636	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.267	610	638	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.14E-6	612	637	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.0038	612	637	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	8.6E-6	619	636	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 638 aa Download sequence Send to blast
MAAAAAAADD DDHRTALPRE EDDGEEEEEV ESDDEEEEEG EGDGWKGSRM PKMGKDEMDL 60 LAMVDKLMHD GQLEKLKVYE CKAYLRMHKL RLSGNKEVLL TRIREHIEYE LYPLCNLSFF 120 FICYLSTLLI FCNANELLLF DHFLVLQNQG ENYGRGDSCK GDVVVFEQNI YKRKKGAPRG 180 VKGHLCGQRT NAGRIIKESY GTKKQQHTFT PWLDEEERNR ALQEKHARGY VARKTREVRI 240 KEKDNERMRR LNRNKENKSK GQDSMNKKSS QEVLPQHTVT TNTVQKRAEK IIPSLQHGES 300 GNSSQQHLSS KQTPTEQLLH YLPQFPHPQQ HNEVLLQKGT SRTSTAQLTN HQAPSLQHAV 360 KAETTQQQQQ LPKSIKPAPI QQSSAYPQQY PKNQHHNQEL PRVPPSQEQR AAVSQTSAAR 420 QDFTNHKAPP SRQHGGSENM RRQEISSRPT LTPTPQQAVS YTQQQPPNHQ YRNEAFRQQG 480 GTSTSGTGFM DRQSNNWGST DHDKPAFQPR MTFTQKAKTY QHGSNGSGHH QARIDRETHQ 540 PLRSRNQDYY WEDQSYHHQQ NHHQNYYYGH RQMSQDQYHH QQNHHQNYNG RQGMNRNQYH 600 DRQNQNPQRF RPWKPCFIYQ QQGWCPYGEN CKFVHDLR

Sequence ? help Back to Top

Protein Sequence Length: 638 aa Download sequence Send to blast

MAAAAAAADD DDHRTALPRE EDDGEEEEEV ESDDEEEEEG EGDGWKGSRM PKMGKDEMDL  60
LAMVDKLMHD GQLEKLKVYE CKAYLRMHKL RLSGNKEVLL TRIREHIEYE LYPLCNLSFF  120
FICYLSTLLI FCNANELLLF DHFLVLQNQG ENYGRGDSCK GDVVVFEQNI YKRKKGAPRG  180
VKGHLCGQRT NAGRIIKESY GTKKQQHTFT PWLDEEERNR ALQEKHARGY VARKTREVRI  240
KEKDNERMRR LNRNKENKSK GQDSMNKKSS QEVLPQHTVT TNTVQKRAEK IIPSLQHGES  300
GNSSQQHLSS KQTPTEQLLH YLPQFPHPQQ HNEVLLQKGT SRTSTAQLTN HQAPSLQHAV  360
KAETTQQQQQ LPKSIKPAPI QQSSAYPQQY PKNQHHNQEL PRVPPSQEQR AAVSQTSAAR  420
QDFTNHKAPP SRQHGGSENM RRQEISSRPT LTPTPQQAVS YTQQQPPNHQ YRNEAFRQQG  480
GTSTSGTGFM DRQSNNWGST DHDKPAFQPR MTFTQKAKTY QHGSNGSGHH QARIDRETHQ  540
PLRSRNQDYY WEDQSYHHQQ NHHQNYYYGH RQMSQDQYHH QQNHHQNYNG RQGMNRNQYH  600
DRQNQNPQRF RPWKPCFIYQ QQGWCPYGEN CKFVHDLR

Cis-element ? help Back to Top
Source	Link
PlantRegMap	KN540062.1_FGP003

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	AC079936	0.0	AC079936.7 Oryza sativa Japonica Group chromosome X clone OSJNBb0061I18, complete sequence.
GenBank	AC091734	0.0	AC091734.3 Genomic Sequence for Oryza sativa, Nipponbare strain, clone OSJNBa0068A07, from Chromosome 10, complete sequence.
GenBank	AP014966	0.0	AP014966.1 Oryza sativa Japonica Group DNA, chromosome 10, cultivar: Nipponbare, complete sequence.
GenBank	CP012618	0.0	CP012618.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 10 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025876398.1	0.0	zinc finger CCCH domain-containing protein 62
Swissprot	Q338N2	0.0	C3H62_ORYSJ; Zinc finger CCCH domain-containing protein 62
TrEMBL	B8BGM9	0.0	B8BGM9_ORYSI; Uncharacterized protein
STRING	ORGLA10G0072900.1	0.0	(Oryza glaberrima)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP13107	20	22

Publications ? help Back to Top
Rice Chromosome 10 Sequencing Consortium In-depth view of structure, activity, and evolution of rice chromosome 10. Science, 2003. 300(5625): p. 1566-9 [PMID:12791992]