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Main scripts to process and collect UTR annotations

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BioinfoUNIBA/UTRdb

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CAGEs.sh
CAGEs.sh
 
 
CAGEs_bed_extraction.py
CAGEs_bed_extraction.py
 
 
Ires_html_parser.py
Ires_html_parser.py
 
 
Ires_table.html
Ires_table.html
 
 
LICENSE
LICENSE
 
 
Mus_musculus.GRCm38.95.m6a.gz
Mus_musculus.GRCm38.95.m6a.gz
 
 
README.md
README.md
 
 
RMVar_Human_basic_info_m6Am.zip
RMVar_Human_basic_info_m6Am.zip
 
 
ReadGTFutrdb.py
ReadGTFutrdb.py
 
 
Rediportal_bed_extraction.py
Rediportal_bed_extraction.py
 
 
Rfam_fasta_prepare.py
Rfam_fasta_prepare.py
 
 
UTR_parser.py
UTR_parser.py
 
 
UTRdblogo.png
UTRdblogo.png
 
 
apadb_bed_extraction.py
apadb_bed_extraction.py
 
 
cages_mysql_table_prepare.py
cages_mysql_table_prepare.py
 
 
ensmbl_rptann_dwnld.py
ensmbl_rptann_dwnld.py
 
 
gene_ontologies.py
gene_ontologies.py
 
 
gene_ontologies_extrctr.py
gene_ontologies_extrctr.py
 
 
go_add_descr.py
go_add_descr.py
 
 
launcher_rfam_extraction.sh
launcher_rfam_extraction.sh
 
 
m6a.py
m6a.py
 
 
m6a_mysql_table_prepare.py
m6a_mysql_table_prepare.py
 
 
mirna_mysql_extractor.py
mirna_mysql_extractor.py
 
 
mysql_cages_table_loader.py
mysql_cages_table_loader.py
 
 
phastcons_bed_extraction.py
phastcons_bed_extraction.py
 
 
phastcons_mysql_table_prepare.py
phastcons_mysql_table_prepare.py
 
 
rdprtl_editing_mysql_table_prepare.py
rdprtl_editing_mysql_table_prepare.py
 
 
rediportal_mm10.txt
rediportal_mm10.txt
 
 
repeats_bed_extraction.py
repeats_bed_extraction.py
 
 
repeats_mysql_table_prepare.py
repeats_mysql_table_prepare.py
 
 
rfam_table_prepare.py
rfam_table_prepare.py
 
 
utr_orthologs_extractor.py
utr_orthologs_extractor.py
 
 
variants_bed_extraction.py
variants_bed_extraction.py
 
 
variants_downloader.py
variants_downloader.py
 
 
variants_mysql_table_prepare.py
variants_mysql_table_prepare.py
 
 

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UTRdb

A curated database of 5' and 3' untranslated sequences of eukaryotic mRNAs

This repository hosts main scripts to process and collect UTR annotations for UTRdb, a curated collection of 5’ and 3’ untraslated regions from eukaryotic mRNAs conmprising over 26 million entries from 573 species.

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Main scripts to process and collect UTR annotations

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