Factsheet for Solyc12g094490.1.1

Subcellular Localization

min:

: max

Winner_takes_all: nucleus

Predictor Summary:

nucleus 3
mitochondrion 1
cytosol 2
plastid 1

Predictors

GFP

MS/MS

Papers

nucleus: 28394025

msms PMID: 28394025 doi

AJM Howden, R Stam, V Martinez Heredia, GB Motion, S Ten Have, K Hodge, TM Marques Monteiro Amaro, E Huitema

Cell and Molecular Sciences, JHI, Invergowrie, Dundee, DD2 5DA, UK., Division of Plant Science, School of Life Sciences, University of Dundee at the James Hutton Institute (JHI), Invergowrie, Dundee, DD2 5DA, UK., Dundee Effector Consortium, JHI, Invergowrie, Dundee, DD2 5DA, UK., Section of Population Genetics, Technische Universität München, 85354, Freising, Germany., Wellcome Trust Centre for Gene Regulation and Expression, School of Life Sciences, University of Dundee, Dow Street, Dundee, DD1 5EH, UK.

PPI

Inferred distinct locusB in Crop

locusB	locations
Solyc02g021760.2.1
Solyc02g070240.2.1
Solyc12g094490.1.1

Inferred from Arabidopsis experimental PPI

Ath locusA	locusB	Ath locusB	Paper
AT4G04885.1	Solyc02g021760.2.1	AT1G30460.1	18479511
AT4G04885.1	Solyc02g070240.2.1	AT1G30460.1	18479511
AT4G04885.1	Solyc12g094490.1.1	AT4G04885.1	18479511

Homology

Paralog

locus	Identity	Homology Identity

Ortholog

locus	Homology Species	Location	Identity	Homology Identity
PGSC0003DMT400075619	Potato	nucleus	96.21	96.11
CDX94585	Canola	nucleus	34.56	44.34
AT4G04885.1	Thale cress	nucleus	36.72	44.31
Bra029526.1-P	Field mustard	nucleus, plastid	34.97	44.17
KRG91241	Soybean	nucleus	41.85	43.54
CDY16640	Canola	nucleus	34.56	43.54
KRH35569	Soybean	cytosol	40.1	42.41
VIT_10s0116g00720.t01	Wine grape	nucleus	39.9	40.39
GSMUA_Achr6P18930_001	Banana	nucleus	33.23	39.42
KRH35574	Soybean	nucleus	15.79	38.21
TraesCS7A01G294500.5	Wheat	nucleus	31.9	33.33
TraesCS7D01G290300.2	Wheat	nucleus	31.69	33.15
HORVU7Hr1G069840.2	Barley	plastid	32.21	31.98
OQU80002	Sorghum	nucleus	31.28	31.94
Zm00001d049442_P009	Maize	nucleus	31.59	31.85
Zm00001d000023_P004	Maize	nucleus	31.28	31.64
Os08t0187700-01	Rice	cytosol	31.38	31.51
TraesCS7B01G181900.3	Wheat	nucleus	32.0	31.26
Solyc09g009120.2.1	Tomato	nucleus	24.62	23.01
Solyc10g083590.1.1	Tomato	nucleus	23.38	20.69

Protein Annotations

Gene3D:1.25.40.90	MapMan:16.2.1.5.2	InterPro:CID_dom	InterPro:ENTH_VHS	GO:GO:0000003	GO:GO:0000993
GO:GO:0003674	GO:GO:0003676	GO:GO:0003723	GO:GO:0003729	GO:GO:0005488	GO:GO:0005515
GO:GO:0005575	GO:GO:0005622	GO:GO:0005623	GO:GO:0005634	GO:GO:0005654	GO:GO:0005737
GO:GO:0005849	GO:GO:0006139	GO:GO:0006369	GO:GO:0006378	GO:GO:0006379	GO:GO:0006397
GO:GO:0007275	GO:GO:0008150	GO:GO:0008152	GO:GO:0009058	GO:GO:0009791	GO:GO:0009908
GO:GO:0009911	GO:GO:0009987	InterPro:IPR006569	InterPro:IPR008942	InterPro:IPR013087	UniProt:K4DH21
PFAM:PF04818	ScanProsite:PS00028	PFscan:PS51391	PANTHER:PTHR15921	InterPro:RNA_pol_II-bd	SMART:SM00582
SUPFAM:SSF48464	EnsemblPlantsGene:Solyc12g094490.1	EnsemblPlants:Solyc12g094490.1.1	UniParc:UPI0002769890	InterPro:Znf_C2H2_type	SEG:seg

Description

Polyadenylation and cleavage factor homolog 4 [Source:Projected from Arabidopsis thaliana (AT4G04885) UniProtKB/Swiss-Prot;Acc:Q0WPF2]

Coordinates

chr12:+:64703325..64711120

Molecular Weight (calculated)

107262.0 Da

IEP (calculated)

7.200

GRAVY (calculated)

-0.579

Length

975 amino acids

Sequence
(BLAST)

001: MALAGGYANS KLIQNDAAVA PPKPLSSSVI ERYKSALKER EIEIRASMQG GDDDVIVLPP SMNEIVRLYE MLLSELAFNS KPIITDLTII AGEQREHGEG
101: IAHAICNRIL EVPVEQKLPA LYLLDSVVKN IGKDYIKHFS AHLPEVFCEA YRQVHPSMHP AMRHLFGTWS TVFPAPVLQK IETRLQFSQP GVQQSSGLTS
201: SRASESPRPA HGIHVNPKYL EARRQLGHST IDSVRAENST GHISSDLEAK QVLSTSSKNA RSSSPYRVGP PRSLSPTLNE FALDNPAIGL RERASPSHTA
301: LDYGFSRVRG RDVERSEWQR ILPDGANQQP DVPPKYRINK GIDLQGPRAL IDAYGIDERE KVAHLRQQKT GNATINGLGN GLAVKTWQNT EEEEFNWEDM
401: SPTLADQSPF NDLSASLRHP QSIRMRPCVD SQHAGPLVAD PRRNWANRGQ YSLVHDSSVD DVHSSGRGAR NKITGYCDET SLISGSHYLQ KLPENVPQLP
501: LRHLKGEGSG ISSVTGESKH PLIGNLAADG HTWRPPYVPP RMNPTFDSSV QDVRVVTGRG PGVPWPPQNV HTPHSLTSKP VVLPHNHVRS PYEVNNASNS
601: VVNHTLDRPV LPEQHIDNLK SSSHIKFPQF PSQHPTSFST SHQNSEQMAS AEPQLLLSQR IHQTMPPSAS LPASNHLLPP TYRYPLPGPG SSIGPHFPRP
701: VSGPQVSMPL VNVPNTSSQF SSGALPPFPR GPLPMPSKFM PASQNPGQVT PNPPAAGFSS LINSLMAQGL ISLTNQAPAQ DPVGLDFNPD LLKVRHDSAV
801: TALYADLPRQ CTTCGLRFKC QEAHSSHMDW HVTKNRVSKN RKQKSSRKWF VSVNMWLSGT EALGSDAVPG FLPTEQVVET KDDEELAVPA DDEQNACALC
901: GEPFDDFYSD ETEEWMYRGA VYMNAPSGST VGMERSQLGP IIHAKCRSES SAPHEDSRKV DEGPEDESQR KRMRS

Best Arabidopsis Sequence Match ( AT4G04885.1 )
(BLAST)

001: MDSEKILNPR LVSINSTSRK GMSVELPQKP PPPPSLLDRF KALLNQREDE FGGGEEVLPP SMDEIVQLYE VVLGELTFNS KPIITDLTII AGEQREHGEG
101: IANAICTRIL EAPVEQKLPS LYLLDSIVKN IGRDYGRYFS SRLPEVFCLA YRQAHPSLHP SMRHLFGTWS SVFPPPVLRK IDMQLQLSSA ANQSSVGASE
201: PSQPTRGIHV NPKYLRRLEP SAAENNLRGI NSSARVYGQN SLGGYNDFED QLESPSSLSS TPDGFTRRSN DGANPSNQAF NYGMGRATSR DDEHMEWRRK
301: ENLGQGNDHE RPRALIDAYG VDTSKHVTIN KPIRDMNGMH SKMVTPWQNT EEEEFDWEDM SPTLDRSRAG EFLRSSVPAL GSVRARPRVG NTSDFHLDSD
401: IKNGVSHQLR ENWSLSQNYP HTSNRVDTRA GKDLKVLASS VGLVSSNSEF GAPPFDSIQD VNSRFGRALP DGTWPHLSAR GPNSLPVPSA HLHHLANPGN
501: AMSNRLQGKP LYRPENQVSQ SHLNDMTQQN QMLVNYLPSS SAMAPRPMQS LLTHVSHGYP PHGSTIRPSL SIQGGEAMHP LSSGVLSQIG ASNQPPGGAF
601: SGLIGSLMAQ GLISLNNQPA GQGPLGLEFD ADMLKIRNES AISALYGDLP RQCTTCGLRF KCQEEHSKHM DWHVTKNRMS KNHKQNPSRK WFVSASMWLS
701: GAEALGAEAV PGFLPTEPTT EKKDDEDMAV PADEDQTSCA LCGEPFEDFY SDETEEWMYK GAVYMNAPEE STTDMDKSQL GPIVHAKCRP ESNGGDMEEG
801: SQRKKMRS

Arabidopsis Description

PCFS4Polyadenylation and cleavage factor homolog 4 [Source:UniProtKB/Swiss-Prot;Acc:Q0WPF2]
SUBAcon: [nucleus]

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.