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)

8 rows where transcript_id = 2107325

✎ View and edit SQL

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
11507142 GT-AG 0 0.001308523724769 3044 rna-XM_009877929.1 2107325 1 174 3217 Apaloderma vittatum 57397 TCT|GTGTGTTCTG...TTTTTTTTTATG/TTTTTTTTTATG...CACAG|GAA 0 1 17.209
11507143 GT-AG 0 0.0058235866053486 688 rna-XM_009877929.1 2107325 2 3309 3996 Apaloderma vittatum 57397 CTG|GTAACATCTT...CTTTTTTTAACA/CTTTTTTTAACA...AACAG|ATG 1 1 31.318
11507144 GT-AG 0 0.0001113433252869 339 rna-XM_009877929.1 2107325 3 4067 4405 Apaloderma vittatum 57397 AGG|GTACGTATCA...TTTTTCTTCATT/TTTTTCTTCATT...GTCAG|GTT 2 1 42.171
11507145 GT-AG 0 0.0001971383874783 4984 rna-XM_009877929.1 2107325 4 4477 9460 Apaloderma vittatum 57397 ACA|GTAAGTATTA...GAAGTTTTAATG/CTGTGTTTGATC...TCTAG|ATG 1 1 53.178
11507146 GT-AG 0 1.000000099473604e-05 1580 rna-XM_009877929.1 2107325 5 9515 11094 Apaloderma vittatum 57397 ATG|GTAAGAAAAA...TTTTTCTGAAAG/CTTTTTCTGAAA...CACAG|CAT 1 1 61.55
11507147 GT-AG 0 1.000000099473604e-05 1065 rna-XM_009877929.1 2107325 6 11112 12176 Apaloderma vittatum 57397 GTG|GTAAGATGTT...TATGCTTCAACT/ATATGCTTCAAC...CACAG|CAG 0 1 64.186
11507148 GT-AG 0 1.000000099473604e-05 624 rna-XM_009877929.1 2107325 7 12203 12826 Apaloderma vittatum 57397 CAA|GTAAGTCAAC...GTATTTTTATTT/TGTATTTTTATT...TAAAG|ATA 2 1 68.217
11507149 GT-AG 0 1.000000099473604e-05 930 rna-XM_009877929.1 2107325 8 12924 13853 Apaloderma vittatum 57397 GAG|GTGATTTGTA...GTGTTTTCAACT/TGTGTTTTCAAC...AACAG|ATG 0 1 83.256

Advanced export

JSON shape: default, array, newline-delimited, object

CSV options: 

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]);