Difference between revisions of "JP Mar 22 16"

Revision as of 18:28, 22 March 2016

Julia Preziosi

Using Generic GO Term Mapper with goa_human (Generic Go Slim) reference for 44 interesting genes: only maps 22 of the genes by gene name.

http://go.princeton.edu/cgi-bin/GOTermMapper

QuickGO

http://www.ebi.ac.uk/QuickGO/GAnnotation

CateGOrizer

http://www.animalgenome.org/cgi-bin/util/gotreei

We are now analyzing the KEGG pathways of the 44 genes.

Input list of contig_gene names and sequences. Given a list of organisms; Blast BBH

http://www.genome.jp/kaas-bin/kaas_main?mode=user&mail=nielder@davidson.edu

Candidates:

Contig887_EIF4EBP1_Eukaryotic_translation_initiation_factor_4E-binding_protein_1_Bos_taurus

This gene encodes one member of a family of translation repressor proteins. The protein directly interacts with eukaryotic translation initiation factor 4E (eIF4E), which is a limiting component of the multisubunit complex that recruits 40S ribosomal subunits to the 5' end of mRNAs. Interaction of this protein with eIF4E inhibits complex assembly and represses translation. This protein is phosphorylated in response to various signals including UV irradiation and insulin signaling, resulting in its dissociation from eIF4E and activation of mRNA translation.

The protein leads to repression of transcription. It is upregulated in fed snakes.