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AT5G42820.1
Subcellular Consensus
(Prediction and Experimental)

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SUBAcon:
nucleus 1.000
ASURE: nucleus
What is SUBAcon?
What is ASURE?
SUBAcon computations
Experimental Localisations and PPI
FP MS/MS PPI
SUBAcon links
AGI-AGI relationships
Coexpression PPI
Description (TAIR10) protein_coding : Zinc finger C-x8-C-x5-C-x3-H type family protein
Curator
Summary (TAIR10)
U2 auxiliary factor small subunit. The atU2AF35b protein and its homolog, atU2AF35a, contain most of the conserved domains of hsU2AF35, including the psiRRM, one RS domain, two zinc fingers, and the two regions for interacting with U2AF large subunit. Both proteins lack the stretch of glycines present in human U2AF35. The sequences are overall 83% identical, and each Arabidopsis homolog shows approximately 70% similarity to hsU2AF35. U2AF(35) homologs were also identified from maize, rice and other plants with large-scale EST projects. Both genes are expressed in all major tissues, with atU2AF(35)a expressed at a higher level than atU2AF(35)b in most tissues. The expression patterns were different in roots: atU2AF(35)b expressed strongly in whole young roots and root tips and atU2AF(35)a limited to root vascular regions.
Computational
Description (TAIR10)
U2AF35B; FUNCTIONS IN: RNA binding, zinc ion binding, nucleotide binding, nucleic acid binding; INVOLVED IN: photoperiodism, flowering; LOCATED IN: nucleus; EXPRESSED IN: 28 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: Zinc finger, CCCH-type (InterPro:IPR000571), RNA recognition motif, RNP-1 (InterPro:IPR000504), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677), U2 auxiliary factor small subunit (InterPro:IPR009145); BEST Arabidopsis thaliana protein match is: U2 snRNP auxiliary factor small subunit, putative (TAIR:AT1G27650.1); Has 1807 Blast hits to 1807 proteins in 277 species: Archae - 0; Bacteria - 0; Metazoa - 736; Fungi - 347; Plants - 385; Viruses - 0; Other Eukaryotes - 339 (source: NCBI BLink).
Protein Annotations
BioGrid:19543eggNOG:ENOG410Z5PXeggNOG:KOG2202EMBL:AB007647EMBL:AB008264EMBL:AF409140EMBL:AY136436
EMBL:BT000219EMBL:CP002688EnsemblPlants:AT5G42820EnsemblPlants:AT5G42820.1EnsemblPlants:AT5G42820.2entrez:834293Gene3D:3.30.70.330
GeneID:834293Genevisible:Q9FMY5GO:GO:0000166GO:GO:0000398GO:GO:0003677GO:GO:0003723GO:GO:0005634
GO:GO:0005681GO:GO:0016607GO:GO:0046872GO:GO:0048573GO:GO:0089701Gramene:AT5G42820.1Gramene:AT5G42820.2
hmmpanther:PTHR12620hmmpanther:PTHR12620:SF16HOGENOM:HOG000178619InParanoid:Q9FMY5IntAct:Q9FMY5InterPro:IPR000504InterPro:IPR000571
InterPro:IPR003954InterPro:IPR009145InterPro:IPR012677KEGG:ath:AT5G42820KO:K12836OMA:DDYHHRDPANTHER:PTHR12620
PaxDb:Q9FMY5Pfam:PF00076Pfam:PF00642Pfam:PF13893Pfam:Q9FMY5Pfscan:PS50102Pfscan:PS50103
PhylomeDB:Q9FMY5PRIDE:Q9FMY5PRINTS:PR01848PRO:PR:Q9FMY5PROSITE:PS50102PROSITE:PS50103ProteinModelPortal:Q9FMY5
Proteomes:UP000006548Reactome:R-ATH-72163Reactome:R-ATH-72187RefSeq:NP_199096.1RefSeq:NP_974870.1SMART:SM00356SMART:SM00361
SMR:Q9FMY5STRING:3702.AT5G42820.1SUPFAM:SSF54928TAIR:AT5G42820tair10-symbols:ATU2AF35Btair10-symbols:U2AF35BUniGene:At.25814
UniGene:At.8456UniProt:Q9FMY5
Coordinates (TAIR10) chr5:-:17170445..17171296
Molecular Weight (calculated) 33233.80 Da
IEP (calculated) 9.97
GRAVY (calculated) -1.22
Length 283 amino acids
Sequence (TAIR10)
(BLAST)
001: MAEHLASIFG TEKDRVNCPF YFKIGACRHG DRCSRLHNRP TISPTLLLSN MYQRPDMITP GVDPQGQPLD PSKIQDHFED FYEDIFEELN KFGEVESLNV
101: CDNLADHMIG NVYVLFKEED HAAAALQALQ GRFYSGRPII ADFSPVTDFR EATCRQYEEN SCNRGGYCNF MHVKQISREL RRKLFGRYRR SYRRGSRSRS
201: RSISPRRKRE HSRERERGDV RDRDRHGNGK RSSDRSERHD RDGGGRRRHG SPKRSRSPRN VREGSEERRA RIEQWNRERD EGV
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)