Factsheet for Solyc01g080660.2.1

Subcellular Localization

min:

: max

Winner_takes_all: nucleus

Predictor Summary:

nucleus 5
plastid 2
mitochondrion 2

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
Solyc01g005820.2.1
Solyc01g080660.2.1
Solyc01g099810.2.1
Solyc01g105140.2.1
Solyc05g054920.2.1
Solyc06g009060.2.1
Solyc07g066420.2.1
Solyc09g005980.2.1
Solyc09g075090.1.1
Solyc09g098390.2.1

Inferred from Arabidopsis experimental PPI

Ath locusA	locusB	Ath locusB	Paper
AT5G18810.1	Solyc06g009060.2.1	AT1G02840.1	18674533
AT5G18810.1	Solyc09g075090.1.1	AT1G02840.1	18674533
AT5G18810.1	Solyc01g099810.2.1	AT1G09140.1	18674533
AT5G18810.1	Solyc07g066420.2.1	AT1G53720.1	16497658
AT5G18810.1	Solyc05g054920.2.1	AT2G37340.1	18674533
AT5G18810.1	Solyc09g005980.2.1	AT2G37340.1	18674533
AT5G18810.1	Solyc09g098390.2.1	AT2G43370.1	15987817
AT5G18810.1	Solyc01g005820.2.1	AT3G13570.1	18674533
AT5G18810.1	Solyc01g080660.2.1	AT5G18810.1	18674533
AT5G18810.1	Solyc01g105140.2.1	AT5G64200.2	18674533

Homology

Paralog

locus	Identity	Homology Identity

Ortholog

locus	Homology Species	Location	Identity	Homology Identity
PGSC0003DMT400016115	Potato	nucleus	95.18	59.4
GSMUA_Achr5P27460_001	Banana	nucleus	31.93	56.38
GSMUA_Achr8P00210_001	Banana	mitochondrion, nucleus	34.34	53.27
KRH50944	Soybean	nucleus	68.07	46.5
KRH02172	Soybean	nucleus	69.88	46.4
Os03t0363800-01	Rice	nucleus	64.46	44.03
AT5G18810.1	Thale cress	nucleus	61.45	43.22
KXG39307	Sorghum	nucleus	62.05	42.74
VIT_14s0030g00480.t01	Wine grape	nucleus	72.29	41.81
TraesCS4B01G156200.1	Wheat	nucleus	59.04	41.0
TraesCS4D01G162900.1	Wheat	nucleus	58.43	40.76
Zm00001d029256_P002	Maize	nucleus	59.04	40.0
HORVU4Hr1G045510.3	Barley	nucleus	57.23	39.75
TraesCS4A01G141800.2	Wheat	nucleus	59.04	39.2
HORVU7Hr1G080760.3	Barley	mitochondrion	33.13	32.74
GSMUA_Achr5P27470_001	Banana	nucleus	21.69	30.0
HORVU1Hr1G043200.4	Barley	mitochondrion, nucleus	31.33	27.96
Solyc01g005820.2.1	Tomato	nucleus	39.16	25.79
GSMUA_Achr8P00220_001	Banana	extracellular	29.52	22.17
Solyc01g105140.2.1	Tomato	nucleus	25.9	16.93
Solyc04g074040.2.1	Tomato	nucleus	24.7	15.89

Protein Annotations

MapMan:16.4.6.2	Gene3D:3.30.70.330	GO:GO:0003674	GO:GO:0003676	GO:GO:0003723	GO:GO:0005488
GO:GO:0005575	GO:GO:0005622	GO:GO:0005623	GO:GO:0005634	GO:GO:0005654	GO:GO:0016607
InterPro:IPR000504	InterPro:IPR012677	UniProt:K4AXW0	InterPro:Nucleotide-bd_a/b_plait_sf	PFAM:PF00076	PFscan:PS50102
PANTHER:PTHR23147	PANTHER:PTHR23147:SF7	InterPro:RBD_domain_sf	InterPro:RRM_dom	InterPro:RRM_dom_euk	SMART:SM00360
SMART:SM00361	SUPFAM:SSF54928	EnsemblPlantsGene:Solyc01g080660.2	EnsemblPlants:Solyc01g080660.2.1	UniParc:UPI0002762545	SEG:seg

Description

Serine/arginine-rich SC35-like splicing factor SCL28 [Source:Projected from Arabidopsis thaliana (AT5G18810) UniProtKB/Swiss-Prot;Acc:Q1PDV2]

Coordinates

chr1:-:79898102..79902441

Molecular Weight (calculated)

19388.9 Da

IEP (calculated)

11.882

GRAVY (calculated)

-1.227

Length

166 amino acids

Sequence
(BLAST)

001: MGRYRSRSRS LSRSYSPVRR KRHDEPRDRR RERRSPGPSG LLVRNIPLSA RPEDLRVPFE RYGPIRDVYL PKNYHTGEPR GFGFVKFRYA EDAAEAKAHL
101: NNTVIGGRDI RIVFAEDNRK TPREMRKVLS TSGPSARGSY WRHSSPSRRY HSYSRSASPA RRDSRC

Best Arabidopsis Sequence Match ( AT5G18810.1 )
(BLAST)

001: MARARSRSRS YSPRPRDRSP PRERKGYDDN RLRERPSSRD HESSGPSGLL IRNLPLDARP NDLRDSFERF GPLKDIYLPR NYYTGEPRGF GFVKYRYAED
101: AAEAMKRMNH KVIGGREIAI VFAEENRKTP QEMRTTNGTS GRHGDYKRTS HRSPRRRYRS HSRSRSPPRR ESRHSKVRED DLYSPRRRSR SISRSPLPRN
201: EREYKSRNCR SPREERVLTP IRSRCLSRSR SRSLSR

Arabidopsis Description

SCL28Serine/arginine-rich SC35-like splicing factor SCL28 [Source:UniProtKB/Swiss-Prot;Acc:Q1PDV2]
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.