Factsheet for VIT_08s0040g01560.t01

Subcellular Localization

min:

: max

Winner_takes_all: plastid

Predictor Summary:

nucleus 4
plastid 6
cytosol 1

Predictors

GFP

MS/MS

Papers

Winner Takes All:	plastid
Any Predictor:	cytosol, nucleus, plastid
BaCelLo:	nucleus
ChloroP:	plastid
EpiLoc:	nucleus
iPSORT:	plastid
MultiLoc:	nucleus
Plant-mPloc:	cytosol
Predotar:	plastid
PProwler:	plastid
TargetP:	plastid
WoLF PSORT:	plastid
YLoc:	nucleus

PPI

Inferred distinct locusB in Crop

locusB	locations
VIT_04s0023g02110.t01
VIT_06s0004g06590.t01

Inferred from Arabidopsis experimental PPI

Ath locusA	locusB	Ath locusB	Paper
AT2G36990.1	VIT_04s0023g02110.t01	AT3G50910.1	21798944
AT2G36990.1	VIT_06s0004g06590.t01	AT5G58720.1	21798944

Homology

Paralog

locus	Identity	Homology Identity

Ortholog

locus	Homology Species	Location	Identity	Homology Identity
CDY66142	Canola	nucleus	39.39	65.38
GSMUA_Achr4P30300_001	Banana	nucleus	22.82	63.68
CDX79708	Canola	endoplasmic reticulum, extracellular	16.22	61.07
KRG96007	Soybean	nucleus	58.47	59.21
AT2G36990.1	Thale cress	plastid	57.4	58.87
KRH67719	Soybean	nucleus	57.58	58.3
Solyc09g008040.2.1	Tomato	nucleus, plastid	58.11	57.9
Bra017213.1-P	Field mustard	plastid	54.9	57.79
KRH32532	Soybean	nucleus, plastid	59.18	57.74
CDY18468	Canola	plastid	55.62	57.35
KRH19920	Soybean	plastid	57.75	56.45
PGSC0003DMT400055506	Potato	nucleus, plastid	57.58	55.5
GSMUA_Achr11P...	Banana	nucleus	52.58	50.95
TraesCS5D01G551200.1	Wheat	plastid	40.11	40.25
TraesCS5B01G563800.2	Wheat	plastid	40.29	40.14
KXG37075	Sorghum	plastid	39.57	40.0
HORVU5Hr1G125110.10	Barley	plastid	38.86	39.42
TraesCS4A01G315700.3	Wheat	plastid	39.57	39.22
Os08t0242800-01	Rice	plastid	39.22	38.46
VIT_13s0064g00190.t01	Wine grape	nucleus	20.68	36.36
Zm00001d012810_P003	Maize	plastid	27.63	36.22
VIT_15s0024g00640.t01	Wine grape	plastid	30.3	29.57
VIT_16s0050g02520.t01	Wine grape	plastid	21.75	23.55
VIT_04s0008g00600.t01	Wine grape	plastid	21.75	21.75
VIT_16s0039g00660.t01	Wine grape	plastid	21.57	20.93

Protein Annotations

Gene3D:1.10.10.10	Gene3D:1.10.601.10	EntrezGene:100267110	wikigene:100267110	MapMan:15.6.2.1	ProteinID:CBI32760
ProteinID:CBI32760.3	UniProt:D7TQP0	EMBL:FN596008	GO:GO:0001053	GO:GO:0003674	GO:GO:0003676
GO:GO:0003677	GO:GO:0003700	GO:GO:0005488	GO:GO:0005575	GO:GO:0005622	GO:GO:0005623
GO:GO:0005737	GO:GO:0006139	GO:GO:0006351	GO:GO:0006352	GO:GO:0006355	GO:GO:0008150
GO:GO:0008152	GO:GO:0009058	GO:GO:0009507	GO:GO:0009536	GO:GO:0009987	GO:GO:0016043
GO:GO:0016987	GO:GO:2000142	InterPro:IPR036388	EntrezGene:LOC100267110	wikigene:LOC100267110	PFAM:PF04539
PFAM:PF04542	PFAM:PF04545	PIRSF:PIRSF000767	PRINTS:PR00046	ScanProsite:PS00715	ScanProsite:PS00716
PANTHER:PTHR30603	PANTHER:PTHR30603:SF9	InterPro:RNA_pol_sigma-70_dom	InterPro:RNA_pol_sigma70	InterPro:RNA_pol_sigma70_r2	InterPro:RNA_pol_sigma70_r3
InterPro:RNA_pol_sigma70_r4	InterPro:RNA_pol_sigma_SigB/C/D/F	InterPro:RNA_pol_sigma_r2	InterPro:RNA_pol_sigma_r3/r4-like	SUPFAM:SSF88659	SUPFAM:SSF88946
TIGRFAMs:TIGR02937	UniParc:UPI0001983B83	ArrayExpress:VIT_08s0040g01560	EnsemblPlantsGene:VIT_08s0040g01560	EnsemblPlants:VIT_08s0040g01560.t01	unigene:Vvi.2744
InterPro:WH-like_DNA-bd_sf	RefSeq:XP_002276710	RefSeq:XP_002276710.2	SEG:seg	:	:

Description

RNA polymerase sigma factor [Source:UniProtKB/TrEMBL;Acc:D7TQP0]

Coordinates

chr8:-:12688269..12693606

Molecular Weight (calculated)

64031.3 Da

IEP (calculated)

10.014

GRAVY (calculated)

-0.504

Length

561 amino acids

Sequence
(BLAST)

001: MEAGTNILSS TPSFPPRTHF RNSSSSVLML HDQVAPAVAS IPTTIARKFP TSVLLQEQRD EYRPFPQALK DERTFQATLE KRQMEIVVSA DEENSDDHNQ
101: YMVNFERQLL LQPGLWYSLP SSQTGEKSPF SSSIMKSITT DIENSMDVKP CDVLALAKKA LSASKQAVSL YENAKLLGAD LEDSPSPSLG AISSPNLPLE
201: EKTVRSTRLL ERRSKKRRNP KVAVHENHGS RRAEVQRKIN EGYDPKDPLR LFLWGPETRK LLTAKEESEL IVQIQELMRL EEVKKRLQSH LKREPTVVEW
301: AEAVGLSCQV LQSQLHSGNR SRQKLIYANL RMVVHIAKQY QGRGLNLQDL LQEGSMGLMN SVEKFKPNAG CRFASYAYWW IRQAVRKAIF QHSRTIRLPE
401: NMYSLLGKVK EAKRLFIQEG HHDPTKEEIA ERVGITIEKL QRLLLHTRMP LSMQQPVWAD QDTTFQEVTA DTGIEIPDVS VAKQLMRQHV RNLLHVLTPK
501: ERRIIRLRFG IGDGIPRTLS EIGLVFGFSK ERVRQLEQRA LHKLKQCLSS HGLESYTDLL V

Best Arabidopsis Sequence Match ( AT2G36990.1 )
(BLAST)

001: MEATRNLVSS SPSFQTKTHL KSSYSSPSSV VMLHDQTTTP VVNSRHLNSL SRHFPASVLS QEPREESRPL SHALRDDRTS QLTLERRQFD ELVSSREDEK
101: FEQQLLHSTG LWNLLISPLT SETKLPAVVS PLADAELCDV VALAQKALSA SKQAALLVDD TEANPSDNIK DSLSTSSSMS LPEKGNIVRS KRQLERRAKN
201: RRAPKSNDVD DEGYVPQKTS AKKKYKQGAD NDDALQLFLW GPETKQLLTA KEEAELISHI QHLLKLEKVK TKLESQNGCE PTIGEWAEAM GISSPVLKSD
301: IHRGRSSREK LITANLRLVV HIAKQYQNRG LNFQDLLQEG SMGLMKSVEK FKPQSGCRFA TYAYWWIRQS IRKSIFQNSR TIRLPENVYM LLGKVSEARK
401: TCVQEGNYRP SKEELAGHVG VSTEKLDKLL YNTRTPLSMQ QPIWSDQDTT FQEITPDSGI ETPTMSVGKQ LMRNHVRNLL NVLSPKERRI IKLRFGIDGG
501: KQRSLSEIGE IYGLSKERVR QLESRALYRL KQNMNSHGLH AYADLLV

Arabidopsis Description

SIGFRNA polymerase sigma factor sigF, chloroplastic [Source:UniProtKB/Swiss-Prot;Acc:Q9LD95]
SUBAcon: [plastid]

Hydropathy Plot

About CropPAL

The Protein Annotated Locations Database (CropPAL) houses large scale proteomic and GFP localization data from published experimental studies in Soybean (Glycine max), Maize (Zea mays), Wheat (Triticum aestivum), Barley (Hordeum vulgare), Rice (Oryza sativa), Field mustard (Brassica rapa), Canola (Brassica napus), Sorghum (Sorghum bicolor), Potato (Solanum tuberosum), Tomato (Solanum lycopersicum), Banana (Musa acuminata) and Wine grape (Vitis vinifera) as well as precomputed predictions for protein subcellular localizations using protein sequences.