NonCode aReNA database is an integrated collection of manually curated and automatically annotated non-coding transcripts.
At now, it comprenhends sources:
- VEGA (release 67, Nov 2016)
- ENSEMBL (release 87, Dec 2016)
- NCBI REFSEQ (release 79, Nov 2016)
Moreover NonCode aReNA includes specialized curated resources:
- miRBase database of microRNAs (v. 21, last release, Jun 2014)
- GtRNAdb database of tRNAs (last release)
- piRNABank database of piRNAs (last release)
- TAIR Arabidopsis Information Resource (v. 10 - last stable version)
These resource share many entries, so it was necessary to reduce redundancy by through cross-referencing. Redundancy is considered giving priority to manually curated data source. Priority of public data sources is: RefSeq -> Vega -> Ensembl
Moreover, similarity redundancy is considered.
Currently, NonCode aReNa database comprehends model organisms: homo sapiens, mus musculus and arabidopsis thaliana.
DB Statistics
Species | num. transcripts |
---|---|
arabidopsis thaliana | 1448 |
homo sapiens | 175040 |
mus musculus | 118544 |
Source | Species | num transcripts |
---|---|---|
ENSEMBL | homo sapiens | 5399 |
ENSEMBL | mus musculus | 5392 |
GTRNADB | homo sapiens | 53 |
GTRNADB | mus musculus | 22 |
MIRBASE | homo sapiens | 4468 |
MIRBASE | mus musculus | 3094 |
PIRNABANK | homo sapiens | 23439 |
PIRNABANK | mus musculus | 39986 |
REFSEQ | homo sapiens | 61568 |
REFSEQ | mus musculus | 28049 |
TAIR | arabidopsis thaliana | 1448 |
VEGA | homo sapiens | 80113 |
VEGA | mus musculus | 42001 |
biotype | num transcripts |
---|---|
lncRNA | 65704 |
piRNA | 63425 |
retained_intron | 44945 |
processed_transcript | 41861 |
misc_RNA | 25957 |
lincRNA | 19160 |
antisense | 14640 |
miRNA | 8752 |
snRNA | 3323 |
snoRNA | 2610 |
sense_intronic | 1258 |
miRNA_primary_transcript | 1221 |
rRNA | 915 |
tRNA | 764 |
sense_overlapping | 358 |
bidirectional_promoter_lncRNA | 129 |
scaRNA | 80 |
Mt_tRNA | 44 |
3prime_overlapping_ncrna | 37 |
guide_RNA | 31 |
ribozyme | 28 |
antisense_RNA | 14 |