introns
Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)
- id
- INTEGER (primary key), globally unique identifier for each intron
- dinucleotide_pair
- TEXT, terminal dinucleotide sequences of the intron
- is_minor
- INTEGER, indicates if the intron is a minor intron (1) or not (0)
- score
- REAL, score representing the probability (0-100%) of the intron being minor
- length
- INTEGER, length of the intron in base pairs
- transcript_id
- INTEGER (foreign key referencing transcripts(id)), parent transcript
- ordinal_index
- INTEGER, ordinal position of the intron within the transcript (e.g., 3 for the third intron)
- start
- INTEGER, start position of the intron in the genome
- end
- INTEGER, end position of the intron in the genome
- taxonomy_id
- INTEGER (foreign key referencing genomes(taxonomy_id)), NCBI taxonomy identifier for species
- scored_motifs
- TEXT, motifs scored for the intron
- phase
- INTEGER, phase of the intron in coding sequence (0, 1, or 2 or null for introns outside of coding sequence)
- in_cds
- INTEGER, indicates if the intron is within the coding sequence (1) or not (0; e.g., UTR introns)
- relative_position
- REAL, relative position of the intron within the transcript (as a percentage of coding length)
11 rows where transcript_id = 9114897
This data as json, CSV (advanced)
Suggested facets: score, phase
id ▼ | dinucleotide_pair | is_minor | score | length | transcript_id | ordinal_index | start | end | taxonomy_id | scored_motifs | phase | in_cds | relative_position |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
49389831 | GT-AG | 0 | 1.000000099473604e-05 | 1005 | rna-gnl|WGS:VYZG|COLPIC_R00030_mrna 9114897 | 1 | 2784473 | 2785477 | Columbina picui 115618 | AAG|GTAAGGCAGG...GCGCCCTCAGCC/GGCGCCCTCAGC...CCCAG|CTC | 2 | 1 | 16.47 |
49389832 | GT-AG | 0 | 1.000000099473604e-05 | 11671 | rna-gnl|WGS:VYZG|COLPIC_R00030_mrna 9114897 | 2 | 2772644 | 2784314 | Columbina picui 115618 | ATG|GTGAGCTCCG...TTTTTCTTTCCC/TGAAAGCTGAGG...TGTAG|ACA | 1 | 1 | 25.351 |
49389833 | GT-AG | 0 | 1.000000099473604e-05 | 61328 | rna-gnl|WGS:VYZG|COLPIC_R00030_mrna 9114897 | 3 | 2711154 | 2772481 | Columbina picui 115618 | CAG|GTAAGGCTGC...CTAGCTTTCATT/CTAGCTTTCATT...CCCAG|CCA | 1 | 1 | 34.458 |
49389834 | GT-AG | 0 | 1.000000099473604e-05 | 583 | rna-gnl|WGS:VYZG|COLPIC_R00030_mrna 9114897 | 4 | 2710397 | 2710979 | Columbina picui 115618 | ATG|GTGAGTGTGG...CTATTTTTATTT/TCTATTTTTATT...CCCAG|AGC | 1 | 1 | 44.238 |
49389835 | GT-AG | 0 | 1.000000099473604e-05 | 10453 | rna-gnl|WGS:VYZG|COLPIC_R00030_mrna 9114897 | 5 | 2699772 | 2710224 | Columbina picui 115618 | AGG|GTAAGTGAGG...GTTTTTTTCTCT/ATTGGGCTTATA...AATAG|GTT | 2 | 1 | 53.907 |
49389836 | GT-AG | 0 | 0.0014655008890047 | 8610 | rna-gnl|WGS:VYZG|COLPIC_R00030_mrna 9114897 | 6 | 2691114 | 2699723 | Columbina picui 115618 | ACA|GTAGGTATTC...CTCTTCTTATTT/TCTCTTCTTATT...TCCAG|TTA | 2 | 1 | 56.605 |
49389837 | GT-AG | 0 | 1.000000099473604e-05 | 2360 | rna-gnl|WGS:VYZG|COLPIC_R00030_mrna 9114897 | 7 | 2688660 | 2691019 | Columbina picui 115618 | AAA|GTGCGTGAGT...GTCATTTTAATT/GTCATTTTAATT...TGCAG|GTA | 0 | 1 | 61.889 |
49389838 | GT-AG | 0 | 1.000000099473604e-05 | 1115 | rna-gnl|WGS:VYZG|COLPIC_R00030_mrna 9114897 | 8 | 2687438 | 2688552 | Columbina picui 115618 | CCT|GTGAGTTACA...GCTCCCTCCATC/AGTGGTGTGACT...CTCAG|GTG | 2 | 1 | 67.903 |
49389839 | GT-AG | 0 | 1.000000099473604e-05 | 12500 | rna-gnl|WGS:VYZG|COLPIC_R00030_mrna 9114897 | 9 | 2674823 | 2687322 | Columbina picui 115618 | CCG|GTAGGTCTGC...GTCTCCTCTGCT/GTGCTGCTGACT...CCCAG|GAC | 0 | 1 | 74.368 |
49389840 | GT-AG | 0 | 1.000000099473604e-05 | 992 | rna-gnl|WGS:VYZG|COLPIC_R00030_mrna 9114897 | 10 | 2673685 | 2674676 | Columbina picui 115618 | TAA|GTAAGTGGAG...CACACCTCAGCT/CCCGCTCTCACC...TGCAG|CCA | 2 | 1 | 82.574 |
49389841 | GT-AG | 0 | 1.000000099473604e-05 | 72 | rna-gnl|WGS:VYZG|COLPIC_R00030_mrna 9114897 | 11 | 2673466 | 2673537 | Columbina picui 115618 | CAA|GTAAGTGTGA...CACTCCTCAATG/CCACTCCTCAAT...CACAG|GTC | 2 | 1 | 90.838 |
Advanced export
JSON shape: default, array, newline-delimited, object
CREATE TABLE "introns" ( "id" INTEGER, "dinucleotide_pair" TEXT, "is_minor" INTEGER, "score" REAL, "length" INTEGER, "transcript_id" INTEGER, "ordinal_index" INTEGER, "start" INTEGER, "end" INTEGER, "taxonomy_id" INTEGER, "scored_motifs" TEXT, "phase" INTEGER, "in_cds" INTEGER, "relative_position" REAL ,PRIMARY KEY ([id]), FOREIGN KEY([transcript_id]) REFERENCES [transcripts]([id]), FOREIGN KEY([taxonomy_id]) REFERENCES [genomes]([taxonomy_id]) ); CREATE INDEX [idx_introns_transcript_id] ON [introns] ([transcript_id]); CREATE INDEX [idx_introns_taxonomy_id] ON [introns] ([taxonomy_id]); CREATE INDEX [idx_introns_phase] ON [introns] ([phase]); CREATE INDEX [idx_introns_is_minor] ON [introns] ([is_minor]); CREATE INDEX [idx_introns_dinucleotide_pair] ON [introns] ([dinucleotide_pair]); CREATE INDEX [idx_introns_score] ON [introns] ([score]); CREATE INDEX [idx_introns_in_cds] ON [introns] ([in_cds]);