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)

7 rows where transcript_id = 188

✎ 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
725 GT-AG 0 0.0044955652440072 178 rna-XM_027486907.1 188 1 6179644 6179821 Abrus precatorius 3816 TAA|GTTACTTAAG...TGTTTCTTAATG/GTGTTTCTTAAT...TTCAG|GTG 2 1 0.188
726 GT-AG 0 1.000000099473604e-05 264 rna-XM_027486907.1 188 2 6176087 6176350 Abrus precatorius 3816 AGC|GTCAAAACTC...TAGTGTTTATAT/GTAGTGTTTATA...GCAAG|GCA 1 1 56.421
727 GT-AG 0 0.1296834624072941 81 rna-XM_027486907.1 188 3 6175407 6175487 Abrus precatorius 3816 CGA|GTCTCATTTT...TTCTATTTAATC/TATTTAATCACT...TACAG|GAT 0 1 66.65
728 GT-AG 0 8.936572702201465e-05 404 rna-XM_027486907.1 188 4 6174267 6174670 Abrus precatorius 3816 CCG|GTAAGCATTA...AAATTCATAATT/TTAAAATTCATA...TTTAG|ATA 1 1 79.218
729 GT-AG 0 1.000000099473604e-05 105 rna-XM_027486907.1 188 5 6173998 6174102 Abrus precatorius 3816 GAG|GTAAGGAATA...TATCTTTTGGCA/AAAAAACTAATA...AGCAG|AAT 0 1 82.018
730 GT-AG 0 1.000000099473604e-05 1438 rna-XM_027486907.1 188 6 6172431 6173868 Abrus precatorius 3816 AAT|GTGAGTTGTT...ATATCTTTATTT/CATATCTTTATT...TGCAG|AGT 0 1 84.221
731 GT-AG 0 0.0004445901918386 269 rna-XM_027486907.1 188 7 6172030 6172298 Abrus precatorius 3816 CAT|GTAAGTTTAT...TTCCTCTTATTC/TTTCCTCTTATT...CCTAG|AGT 0 1 86.475

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]);