Download everything

Download any part of the database

RBP Motif instances
File name Description Fields Size Compressed Size Uncompressed MD5 of uncompressed file
Homo_sapiens_cDNA_oRNAment.csv.gz The complete oRNAment database for all H. sapiens coding transcript ensembl_gene_id, ensembl_transcript_id, gene_biotype, transcript_biotype, transcript_position, RBP, score, unpaired_probability, chromosome, region, exon_start, exon_end 2596912427 13734427917 483338b9a9327ea382a0d93f644c0063
Homo_sapiens_ncRNA_oRNAment.csv.gz The complete oRNAment database for all H. sapiens non-coding transcript 285559296 1582388413 62071d8561892049b15098ef25c16510
Caenorhabditis_elegans_cDNA_oRNAment.csv.gz The complete oRNAment database for all C. elegans coding transcript 473128322 2420283149 cf2e2f455fa0a5e1b69430846ed75154
Caenorhabditis_elegans_ncRNA_oRNAment.csv.gz The complete oRNAment database for all C. elegans non-coding transcript 19600584 112517805 5b0f1146012acf0ce61be76ae1d1732e
Danio_rerio_cDNA_oRNAment.csv.gz The complete oRNAment database for all D. rerio coding transcript 1093452926 5793125628 8b17960aab1352c9e857eb599d178160
Danio_rerio_ncRNA_oRNAment.csv.gz The complete oRNAment database for all C. elegans non-coding transcript 49577840 288884565 977a4ec8d8e32ce36623644cafd09c45
Drosophila_melanogaster_cDNA_oRNAment.csv.gz The complete oRNAment database for all D. melanogaster coding transcript 671430607 3287365182 90c703739785cf4530130d211533e82c
Drosophila_melanogaster_ncRNA_oRNAment.csv.gz The complete oRNAment database for  all D. melanogaster non-coding transcript 29677612 159385760 7fc30c536afdebb4ffe35b933abe6e5e
Mus_musculus_cDNA_oRNAment.csv.gz The complete oRNAment database for all M. musculus coding transcript 1826590966 9561493052 c826be71c118718589cb92dfb9f13070
Mus_musculus_ncRNA_oRNAment.csv.gz The complete oRNAment database for all M. musculus non-coding transcript 183418572 1006007349 10650df5316522b3dfb4fc876d7d063f
Structure files
File name Description Fields Size Compressed Size Uncompressed MD5 of uncompressed file
Homo_sapiens.GRCh38.cdna-Structure.tsv.gz The sequences and dot-bracket structures, obained by RNAfold, of all H. sapiens coding transcript ensembl_transcript_id, ensembl_gene_id, sequence, dot_bracket_structure 137342686 608609037 81a41df49a8e07c5b64e7538f3146970
Homo_sapiens.GRCh38.ncrna-Structure.tsv.gz The sequences and dot-bracket structures, obained by RNAfold, of all H. sapiens non-coding transcript 14631775 63754797 ff271093ff7b3986a3d5be9d61cd9c87
Caenorhabditis_elegans.WBcel235.cdna-Structure.tsv.gz The sequences and dot-bracket structures, obained by RNAfold, of all C. elegans coding transcript 17531180 107343856 ef674bc3680b0e4d80ae5b0a383af1ab
Caenorhabditis_elegans.WBcel235.ncrna-Structure.tsv.gz The sequences and dot-bracket structures, obained by RNAfold, of all C. elegans non-coding transcript 1076630 4389469 3c25971355b2d63637134216877b0fa4
Danio_rerio.GRCz11.cdna-Structure.tsv.gz The sequences and dot-bracket structures, obained by RNAfold, of all D. rerio coding transcript 42587653 229334032 3843153507fca8b3e6247925d08af617
Danio_rerio.GRCz11.ncrna-Structure.tsv.gz The sequences and dot-bracket structures, obained by RNAfold, of all D. rerio non-coding transcript 2182398 10803701 a0a7c00529f2dd6cf6ae3a80c9fe7e55
Drosophila_melanogaster.BDGP6.cdna-Structure.tsv.gz The sequences and dot-bracket structures, obained by RNAfold, of all D. melanogaster coding transcript 34576535 173359727 72f31f09e177f076abcf32abe5d48ef7
Drosophila_melanogaster.BDGP6.ncrna.Structure.tsv.gz The sequences and dot-bracket structures, obained by RNAfold, of all D. melanogaster non-coding transcript 1371734 6239519 76b09fd33539fa7e1f514dd48bd086c2
Mus_musculus.GRCm38.cdna-Structure.tsv.gz The sequences and dot-bracket structures, obained by RNAfold, of all M. musculus coding transcript 70263375 430410055 ca1e17019ec2c23f328964dc9aad0e5e
Mus_musculus.GRCm38.ncrna-Structure.tsv.gz The sequences and dot-bracket structures, obained by RNAfold, of all M. musculus non-coding transcript 8003232 37013333 8a9b5c2dd018860bf90fc886efb7ec92
Encoding conversionfiles
File name Description Fields Size Compressed Size Uncompressed MD5 of uncompressed file
Homo_sapiens_string_to_int_ID_conversion.csv.gz For efficiency, the data in the oRNAment database are stored as integer whenever possible. This is the conversion file between the ensembl ID as string, as int and the corresponding gene name for H. sapiens ensembl_transcript_id, ensembl_gene_id, external_gene_name, ensembl_transcript_id_INT, ensembl_gene_id,INT 3191017 12099800 44b23e9a28b48b91e08228f6b5efeff6
Caenorhabditis_elegans_string_to_int_ID_conversion.csv.gz For efficiency, the data in the oRNAment database are stored as integer whenever possible. This is the conversion file between the ensembl ID as string, as int and the corresponding gene name for C. elegans 672205 2998942 af15a0ce4a22cd4382adc407fdca3d91
Danio_rerio_string_to_int_ID_conversion.csv.gz For efficiency, the data in the oRNAment database are stored as integer whenever possible. This is the conversion file between the ensembl ID as string, as int and the corresponding gene name for D. rerio 911041 3930219 e8b172182d7a6b7408728e92f6daf86d
Drosophila_melanogaster_string_to_int_ID_conversion.csv.gz For efficiency, the data in the oRNAment database are stored as integer whenever possible. This is the conversion file between the ensembl ID as string, as int and the corresponding gene name for D. melanogaster 402904 1552249 1a8d6a7ad791245454c51ba13dce1aeb
Mus_musculus_string_to_int_ID_conversion.csv.gz For efficiency, the data in the oRNAment database are stored as integer whenever possible. This is the conversion file between the ensembl ID as string, as int and the corresponding gene name for M. musculus 1655928 8305673 9ad3ded41978242fb9703c991d0f34ba
Gene_biotype_encoding.csv.gz For efficiency, the data in the oRNAment database are stored as integer whenever possible. This is the conversion file between the gene biotype and its integer encoding for Human biotype, code 362 990 5eb6e3acd448529135a3dae71da9aedd
Transcript_biotype_encoding.csv.gz For efficiency, the data in the oRNAment database are stored as integer whenever possible. This is the conversion file between the transcript biotype and its integer encoding for Human biotype, code 412 1068 bb611d3190d11076b6fc7b6231b28e48
RBP_id_encoding.csv.gz For efficiency, the data in the oRNAment database are stored as integer whenever possible. This is the conversion file between the RBP and its integer encoding for Human code, RBP name 2257 7445 473a2f823cc0361105dcbea762f24ecc
BedFiles
File name Description Fields Size Compressed Size Uncompressed MD5 of compressed file
Homo_sapiens_oRNAment.bed.tar.gz All of the per RBP results of oRNAment as 223 individual bed file (along with its index) for view on a genome browser chromosome, exon_start, exon_end, RBP (bed file) 516242111 540577122 58299ec277d8a0316324811892002f08
C_elegans_oRNAment.bed.tar.gz All of the per RBP results of oRNAment as 223 individual bed file (along with its index) for view on a genome browser 95741635 211199419 abfd156af35256193c6bc2455604623c
Danio_rerio_oRNAment.bed.tar.gz All of the per RBP results of oRNAment as 223 individual bed file (along with its index) for view on a genome browser 309475628 1741363499 f135e9824b5f19003ffa979346aa072f
Drosophila_melanogaster_oRNAment.bed.tar.gz All of the per RBP results of oRNAment as 223 individual bed file (along with its index) for view on a genome browser 97045285 100326831 3f47113956ae2b0aa78f9dfa9bc5962b
Mus_musculus_oRNAment.bed.tar.gz All of the per RBP results of oRNAment as 223 individual bed file (along with its index) for view on a genome browser 424291600 3254531871 4d4665a799de8d1a6dfd1e4b1061b15d
    PWM      
File name Description Fields Size Compressed Size Uncompressed MD5 of compressed file
PWMs.tgz All the 453 individual RBP PWMs as text file NA 97280 202579 04e9e9cb2a162759830b29351e266c20
PWMs_logo.tgz All the 453 individual RBP PWMs as PNG file NA 5366156 6778150 67db39cb5dee2d4ce1edec4c3a4c9c0a
    Thresholds      
File name Description Fields Size Compressed Size Uncompressed MD5 of compressed file
PMM_thresholds.tar.gz The minimal score for threshold at each available MSS' motif, score_thresholds 28588 91197 690af3f96f3209e0a040a45911d0f234