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 = 34009334

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
190420949 GT-AG 0 0.0041727515205152 721 rna-XM_035363408.1 34009334 3 66739 67459 Stegodyphus dumicola 202533 TAG|GTATGTCATT...ACTGCCTTGACT/ACTGCCTTGACT...TTCAG|CCC 2 1 14.342
190420950 GT-AG 0 0.0032142489939472 4295 rna-XM_035363408.1 34009334 4 67762 72056 Stegodyphus dumicola 202533 AGG|GTAAACTTTT...GTATTTTTATAT/TATATTTTCAGT...TCTAG|ATG 1 1 18.424
190420951 GT-AG 0 1.000000099473604e-05 9373 rna-XM_035363408.1 34009334 5 77628 87000 Stegodyphus dumicola 202533 ATG|GTAAGTTAGG...TTTACCATACTT/AAAAAGCTTATA...AGTAG|ATG 1 1 93.728
190420952 GT-AG 0 2.6355988543540683e-05 4306 rna-XM_035363408.1 34009334 6 87156 91461 Stegodyphus dumicola 202533 AAG|GTTTGTAATT...TTTCTTTTAAAT/AATATTTTTATG...GATAG|TTA 0 1 95.823
190420953 GT-AG 0 1.1681799904252469e-05 16521 rna-XM_035363408.1 34009334 7 91575 108095 Stegodyphus dumicola 202533 GCG|GTAAATATGA...AAATTTATGACT/CTGGTATTAAAT...TTCAG|AGG 2 1 97.351
190420955 GT-AG 0 1.000000099473604e-05 15924 rna-XM_035363408.1 34009334 1 27409 43332 Stegodyphus dumicola 202533 GCG|GTAAGTACTA...TGATTCTTACAT/ATGATTCTTACA...TTTAG|ATA   0 4.663
190420956 GT-AG 0 0.0287205494538198 22539 rna-XM_035363408.1 34009334 2 43549 66087 Stegodyphus dumicola 202533 GAG|GTATTTTATT...TTTTTTTTAATT/TTTTTTTTAATT...TTTAG|GGA   0 7.583

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]);