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Gene : ALY4 A. thaliana

Gene ID  ? AT5G37720
Brief Description  ALWAYS EARLY 4  Source: Araport11 (06/2016).
Is Obsolete?  false
Computational Description  ? ALWAYS EARLY 4 (ALY4); FUNCTIONS IN: nucleotide binding, nucleic acid binding; INVOLVED IN: biological_process unknown; LOCATED IN: nucleolus; CONTAINS InterPro DOMAIN/s: RNA recognition motif, RNP-1 (InterPro:IPR000504), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677); BEST Arabidopsis thaliana protein match is: RNA-binding (RRM/RBD/RNP motifs) family protein (TAIR:AT1G66260.2).  Source: TAIR, Jun 30, 2015.
  • synonyms:
  • DIP2,
  • AtALY4,
  • interacting with DNA-binding domain of Zn-finger PARP 1

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1 GeneRIFs (Gene References Into Functions)

Data Source: NCBI

Annotation PubMed Id
ALY4 proteins participate in multifaceted Nep1Mo-triggered responses in Arabidopsis thaliana. 24723400


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12 Flanking Regions

Flank size: from most upstream transcription start site, or most downstream transcription stop site

Region Name Flank Size Direction Length Gene Included? Chromosome Location
AT5G37720 0.5kb upstream 0.5kb upstream 3612   true Chr5: 14981619-14985230
AT5G37720 0.5kb upstream 0.5kb upstream 500   false Chr5: 14984731-14985230
AT5G37720 0.5kb downstream 0.5kb downstream 3612   true Chr5: 14981119-14984730
AT5G37720 0.5kb downstream 0.5kb downstream 500   false Chr5: 14981119-14981618
AT5G37720 1.0kb upstream 1.0kb upstream 4112   true Chr5: 14981619-14985730
AT5G37720 1.0kb upstream 1.0kb upstream 1000   false Chr5: 14984731-14985730
AT5G37720 1.0kb downstream 1.0kb downstream 4112   true Chr5: 14980619-14984730
AT5G37720 1.0kb downstream 1.0kb downstream 1000   false Chr5: 14980619-14981618
AT5G37720 3.0kb upstream 3.0kb upstream 6112   true Chr5: 14981619-14987730
AT5G37720 3.0kb upstream 3.0kb upstream 3000   false Chr5: 14984731-14987730
AT5G37720 3.0kb downstream 3.0kb downstream 6112   true Chr5: 14978619-14984730
AT5G37720 3.0kb downstream 3.0kb downstream 3000   false Chr5: 14978619-14981618


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3 Pathways

Data Source: KEGG

Identifier Name
03015 mRNA surveillance pathway
03040 Spliceosome
03013 RNA transport

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12 Data Sets

Name Description Version
BAR Annotations Lookup Mapping(s) between AGI locus and Affy Probeset identifier 10/08/2013
Genome Annotation Araport11 protein-coding, non-coding and transposable element genes Araport11 (06/2016)
RNA-seq expression Measure of gene expression levels (Transcripts per Million, TPM) quantified by Salmon Araport11 (06/2016)
PubMed to gene mapping Curated associations between publications and NCBI Gene records 8/12/2016
GO Annotation from InterPro    
PO Annotation from TAIR Literature-based annotations of genes to Plant Ontology (PO) terms 06/30/2015
Swiss-Prot data set High-quality, manually annotated, non-redundant protein sequence database 2016_07
Panther data set PANTHER paralogs from Arabidopsis 11.0
KEGG pathways data set Wiring diagrams of molecular interactions, reactions, and relations 79.0
GeneRIF Concise phrase describing gene function and publication associated with NCBI Gene records 8/12/2016
IntAct interactions data set Curated binary and complex protein-protein interactions for Arabidopsis thaliana 8/02/2016
BioGRID interaction data set Curated set of genetic and physical interactions for Arabidopsis thaliana 3.4.139