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

KN541646.1_FGP001

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: 320aa MW: 35970.5 Da PI: 4.926

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
KN541646.1_FGP001	genome	BGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	33.7	6.1e-11	12	33	5	26
--SGGGGTS--TTTTT-SS-SS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHg 26 lC++++ G+Ck+G +CkF H+ KN541646.1_FGP001 12 LCSYYMNRGICKFGTNCKFDHP 33 9********************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00356	2.6E-5	9	34	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.5E-5	10	32	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.92E-6	10	34	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.2E-8	12	33	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.117	12	35	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: 320 aa Download sequence Send to blast
MPVPPQQEWT GLCSYYMNRG ICKFGTNCKF DHPDPGSDHE KWVVSSNANQ VSSQVNIYSV 60 LDRGESNEHT VTSEEVHQPG IPSFHQRISY TRDQLLQLGQ NVEVPKDILK FCQDINVELK 120 CEDKISGFGA EKDHKFLDNF SEAKEPYALG WKQEKFNKPD QSSFHFDSKD QDDPISVLVK 180 AEVPLSIQRG IISGKDEVLK TLKSILNTFT PKMFDLQKGQ LIETRISSAD ILKAVMDCGK 240 FRFEPLGKVD LLNIIFEGML DSDSAGAESN ICVNAMIGGN KSSIAANDVE MTRKNVNRQN 300 EEAILQKSYD EVPNSKMDPQ

Cis-element ? help Back to Top
Source	Link
PlantRegMap	KN541646.1_FGP001

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	AK101510	0.0	AK101510.1 Oryza sativa Japonica Group cDNA clone:J033045L14, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015641849.1	1e-138	zinc finger CCCH domain-containing protein 43
Refseq	XP_025882269.1	1e-138	zinc finger CCCH domain-containing protein 43
Swissprot	Q5Z5Q3	1e-139	C3H43_ORYSJ; Zinc finger CCCH domain-containing protein 43
TrEMBL	A0A0E0J7P6	1e-143	A0A0E0J7P6_ORYNI; Uncharacterized protein
STRING	ONIVA12G04980.1	1e-144	(Oryza nivara)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP14330	13	22

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G12680.1	2e-07	floral homeotic protein (HUA1)

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764]