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Gene : EMB3011 A. thaliana

Gene ID  ? AT5G13010
Brief Description  RNA helicase family protein  Source: Araport11 (06/2016).
Is Obsolete?  false
Computational Description  ? embryo defective 3011 (EMB3011); FUNCTIONS IN: RNA helicase activity, helicase activity, nucleic acid binding, ATP-dependent helicase activity, ATP binding; INVOLVED IN: embryo development ending in seed dormancy; LOCATED IN: cellular_component unknown; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Helicase-associated domain (InterPro:IPR007502), DNA/RNA helicase, DEAD/DEAH box type, N-terminal (InterPro:IPR011545), Domain of unknown function DUF1605 (InterPro:IPR011709), DEAD-like helicase, N-terminal (InterPro:IPR014001), DNA/RNA helicase, C-terminal (InterPro:IPR001650), Helicase, superfamily 1/2, ATP-binding domain (InterPro:IPR014021); BEST Arabidopsis thaliana protein match is: ATP-dependent RNA helicase, putative (TAIR:AT3G26560.1).  Source: TAIR, Jun 30, 2015.
Curator Summary  ? Encodes a nuclear localized DEAH-box containing protein that is involved in miRNA biogenesis. Loss of function mutants are embryo lethal. Gene silencing experiments demonstrated its role in the localization of DCL-1 and HYL1 to the nuclear D-body. In silenced lines, miRNA production is suppressed and plants have developmental abnormalities and are hypersensitive to fungal pathogens.  Source: TAIR, Jun 30, 2015.
Name  ? embryo defective 3011
  • synonyms:
  • homolog in yeast PRP16,
  • CUV,
  • PRP16,
  • PSR1-Interacting Protein 1,
  • CLUMSY VEIN,
  • PINP1

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0 GeneRIFs (Gene References Into Functions)

Data Source: NCBI

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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
AT5G13010 0.5kb upstream 0.5kb upstream 7106   true Chr5: 4121900-4129005
AT5G13010 0.5kb upstream 0.5kb upstream 500   false Chr5: 4121900-4122399
AT5G13010 0.5kb downstream 0.5kb downstream 7106   true Chr5: 4122400-4129505
AT5G13010 0.5kb downstream 0.5kb downstream 500   false Chr5: 4129006-4129505
AT5G13010 1.0kb upstream 1.0kb upstream 7606   true Chr5: 4121400-4129005
AT5G13010 1.0kb upstream 1.0kb upstream 1000   false Chr5: 4121400-4122399
AT5G13010 1.0kb downstream 1.0kb downstream 7606   true Chr5: 4122400-4130005
AT5G13010 1.0kb downstream 1.0kb downstream 1000   false Chr5: 4129006-4130005
AT5G13010 3.0kb upstream 3.0kb upstream 9606   true Chr5: 4119400-4129005
AT5G13010 3.0kb upstream 3.0kb upstream 3000   false Chr5: 4119400-4122399
AT5G13010 3.0kb downstream 3.0kb downstream 9606   true Chr5: 4122400-4132005
AT5G13010 3.0kb downstream 3.0kb downstream 3000   false Chr5: 4129006-4132005

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1 Pathways

Data Source: KEGG

Identifier Name
03040 Spliceosome

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9 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 TIGR GO annotations assigned by TIGR Arabidopsis annotation effort 8/01/2016
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