suba logo
AT4G38780.1
Subcellular Consensus
(Prediction and Experimental)

min: heatmap :max

.
SUBAcon:
nucleus 1.000
ASURE: nucleus
What is SUBAcon?
What is ASURE?
SUBAcon computations
Experimental Localisations and PPI
FP MS/MS PPI
  • PMID:23396599 (2013): nucleus nuclear envelope nuclear inner membrane
SUBAcon links
AGI-AGI relationships
Coexpression PPI
no PPI data
Description (TAIR10) protein_coding : Pre-mRNA-processing-splicing factor
Curator
Summary (TAIR10)
Computational
Description (TAIR10)
Pre-mRNA-processing-splicing factor; FUNCTIONS IN: molecular_function unknown; INVOLVED IN: nuclear mRNA splicing, via spliceosome; LOCATED IN: spliceosomal complex; EXPRESSED IN: 19 plant structures; EXPRESSED DURING: 8 growth stages; CONTAINS InterPro DOMAIN/s: Mov34/MPN/PAD-1 (InterPro:IPR000555), Pre-mRNA-processing-splicing factor 8, U5-snRNA-binding (InterPro:IPR019581), Pre-mRNA-processing-splicing factor 8 (InterPro:IPR012591), Pre-mRNA-processing-splicing factor 8, U6-snRNA-binding (InterPro:IPR019580), PROCN (InterPro:IPR012592), PRP8 domain IV core (InterPro:IPR021983), PRO, C-terminal (InterPro:IPR012984), RNA recognition motif, spliceosomal PrP8 (InterPro:IPR019582); BEST Arabidopsis thaliana protein match is: Pre-mRNA-processing-splicing factor (TAIR:AT1G80070.1); Has 803 Blast hits to 702 proteins in 309 species: Archae - 0; Bacteria - 0; Metazoa - 318; Fungi - 227; Plants - 60; Viruses - 0; Other Eukaryotes - 198 (source: NCBI BLink).
Protein Annotations
eggNOG:COG5178eggNOG:KOG1795EMBL:CP002687EnsemblPlants:AT4G38780EnsemblPlants:AT4G38780.1entrez:830033GeneID:830033
GO:GO:0000398GO:GO:0005681GO:GO:0009506GO:GO:0017070GO:GO:0030623Gramene:AT4G38780.1hmmpanther:PTHR11140
hmmpanther:PTHR11140:SF0InParanoid:F4JUG5InterPro:IPR000555InterPro:IPR012337InterPro:IPR012591InterPro:IPR012592InterPro:IPR012984
InterPro:IPR019580InterPro:IPR019581InterPro:IPR019582InterPro:IPR021983InterPro:IPR027652KEGG:ath:AT4G38780KO:K12856
ncoils:CoilOMA:NGVIFIFPANTHER:PTHR11140PaxDb:F4JUG5Pfam:PF01398Pfam:PF08082Pfam:PF08083
Pfam:PF08084Pfam:PF10596Pfam:PF10597Pfam:PF10598Pfam:PF12134PRIDE:F4JUG5ProDom:PD149576
ProteinModelPortal:F4JUG5Proteomes:UP000006548Reactome:R-ATH-72163Reactome:R-ATH-72165RefSeq:NP_195589.2SMART:SM00232SMR:F4JUG5
STRING:3702.AT4G38780.1SUPFAM:SSF53098TAIR:AT4G38780UniGene:At.31150UniProt:F4JUG5
Coordinates (TAIR10) chr4:-:18101438..18111029
Molecular Weight (calculated) 271530.00 Da
IEP (calculated) 9.08
GRAVY (calculated) -0.46
Length 2332 amino acids
Sequence (TAIR10)
(BLAST)
0001: MWNIDGTSLA PPGTDGSRMQ TPSHPADHPS YTAPSNRNTP TVPTPEDAEA KLEKKARTWM QLNSKRDHGD MSSKKHRLDK RVYLGALKFV PHAVFKLLEN
0101: MPMPWEQVRD VKVLYHITGA ITFVNEVRWV VEPIYMAQWG SMWIMMRREK RDRRHFKRMR FPPFDDEEPP LDYADNLLDV DPLEAIQLEL DEEEDSAVYS
0201: WFYDHKPLVK TKMINGPSYQ TWNLSLPIMS TLHRLAAQLL SDLVDRNYFY LFDMPSFFTA KALNMCIPGG PKFEPLHRDM EKGDEDWNEF NDINKLIIRS
0301: PLRTEYKVAF PHLYNNRPRK VKLCVYHTPM VMYIKTEDPD LPAFYYDPLI HPISNSNNTN KEQRKSNGYD DDGDDFVLPE GLEPLLNNSP LYTDTTAPGI
0401: SLLFAPRPFN MRSGRTRRAE DIPLVAEWFK EHCPPAYPVK VRVSYQKLLK CYLLNELHHR PPKAQKKKHL FRSLAATKFF QSTELDWVEV GLQVCRQGYN
0501: MLNLLIHRKN LNYLHLDYNF NLKPVKTLTT KERKKSRFGN AFHLCREILR LTKLVVDANV QFRLGNVDAF QLADGLQYIF SHVGQLTGMY RYKYRLMRQI
0601: RMCKDLKHLI YYRFNTGPVG KGPGCGFWAP MWRVWLFFLR GIVPLLERWL GNLLARQFEG RHSKGVAKTV TKQRVESHFD LELRAAVMHD VVDAMPEGIK
0701: QNKARTILQH LSEAWRCWKA NIPWKVPGLP VAIENMILRY VKSKADWWTN VAHYNRERIR RGATVDKTVC RKNLGRLTRL WLKAEQERQH NFQKDGPYVT
0801: ADEGIAIYST TVNWLESRKF SAIPFPPLSY KHDTKLLILA LERLKESYSA AVKLNQQQRE ELGLIEQAYD NPHEALMRIK RHLLTQHSFK EVGIEFMDLY
0901: SHLIPVYQID PLEKITDAYL DQYLWYEGDK RHLFPNWIKP ADSEPPPLLV YKWCQGINNL QGIWDTSDGQ CVVMLQTKFE KLFEKIDLTV LNSLLRLVLD
1001: PKLANYVTGK NNVVLSYKDM SYTNTYGLIR GLQFASFVVQ FYGLVLDLLL LGLTRASEIA GPPQRPNEFM TYWDTKVETR HPIRLYSRYI DKVHIMFKFT
1101: HEEARDLIQR HLTERPDPNN ENMVGYNNKK CWPRDARMRL MKHDVNLGRS VFWDMKNRLP RSITTLEWEN GFVSVYSKDN PNLLFSMCGF EVRVLPKIRM
1201: GQEAFSSTRD GVWNLQNEQT KERTAVAFLR ADDEHMKVFE NRVRQILMSS GSTTFTKIVN KWNTALIGLM TYFREATVHT QELLDLLVKC ENKIQTRVKI
1301: GLNSKMPSRF PPVIFYTPKE IGGLGMLSMG HILIPQSDLR YSNQTDVGVS HFRSGMSHEE DQLIPNLYRY IQPWESEFID SQRVWAEYAL KRQEAQAQNR
1401: RLTLEDLEDS WDRGIPRINT LFQKDRHTLA YDKGWRVRTD FKQYQALKQN PFWWTHQRHD GKLWNLNNYR TDVIQALGGV EGILEHTLFK GTYFPTWEGL
1501: FWEKASGFEE SMKYKKLTNA QRSGLNQIPN RRFTLWWSPT INRANVYVGF QVQLDLTGIY MHGKIPTLKI SLIQIFRAHL WQKIHESVVM DLCQVLDQEL
1601: EPLEIETVQK ETIHPRKSYK MNSSCADVLL FAAHKWPMSK PSLIAESKDV FDQKASNKYW IDVQLRWGDY DSHDIERYTK AKFMDYTTDN MSIYPSPTGV
1701: IIGLDLAYNL HSAFGNWFPG SKPLLAQAMN KIMKSNPALY VLRERIRKGL QLYSSEPTEP YLSSQNYGEI FSNQIIWFVD DTNVYRVTIH KTFEGNLTTK
1801: PINGVIFIFN PRTGQLFLKI IHTSVWAGQK RLGQLAKWKT AEEVAALVRS LPVEEQPKQV IVTRKGMLDP LEVHLLDFPN IVIKGSELQL PFQACLKIEK
1901: FGDLILKATE PQMALFNIYD DWLMTVSSYT AFQRLILILR ALHVNNEKAK MLLKPDMSVV TEPNHIWPSL TDDQWMKVEV ALRDLILSDY AKKNKVNTSA
2001: LTQSEIRDII LGAEITPPSQ QRQQIAEIEK QAKEASQLTA VTTRTTNVHG DELISTTISP YEQSAFGSKT DWRVRAISAT NLYLRVNHIY VNSDDIKETG
2101: YTYIMPKNIL KKFICIADLR TQIAGYLYGI SPPDNPQVKE IRCVVMVPQC GNHQQVQLPS SLPEHQFLDD LEPLGWIHTQ PNELPQLSPQ DVTFHTRVLE
2201: NNKQWDAEKC IILTCSFTPG SCSLTSYKLT QAGYEWGRLN KDTGSNPHGY LPTHYEKVQM LLSDRFFGFY MVPENGPWNY NFMGANHTVS INYSLTLGTP
2301: KEYYHQVHRP THFLQFSKME EDGDLDRDDS FA
See Also
Citation
If you find this resource useful please cite one of the following publications:

Hooper CM, Castleden I, Tanz SK, Aryamanesh, and Millar, AH (2017) SUBA4: the interactive data analysis centre for Arabidopsis subcellular protein locations Nucleic Acids Res. Jan 4;45(D1):D1064-D1074. doi: 10.1093/nar/gkw1041 (PubMed)

Hooper CM, Tanz SK, Castleden IR, Vacher MA, Small ID, Millar AH (2014) "SUBAcon: a consensus algorithm for unifying the subcellular localization data of the Arabidopsis proteome. Bioinformatics." 1;30(23):3356-64. (Bioinformatics) (PubMed)