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 = 26649220

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Suggested facets: dinucleotide_pair, score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
147771534 GT-AG 0 1.000000099473604e-05 3664 PHUM602110-RA 26649220 1 414021 417684 Pediculus humanus 121224 CGA|GTAAGTAAAT...TTTTTTTTTTCT/TCCGAATTAATT...TATAG|CTG 2 1 6.409
147771535 GC-AG 0 1.000000099473604e-05 128 PHUM602110-RA 26649220 2 417838 417965 Pediculus humanus 121224 CAA|GCAAATAGGT...CATTTTTTGATT/CATTTTTTGATT...TACAG|ACC 2 1 12.989
147771536 GT-AG 0 1.000000099473604e-05 92 PHUM602110-RA 26649220 3 418091 418182 Pediculus humanus 121224 TGG|GTGAGTATCA...GACTTCTTGAAT/GTTCCTTTCACG...TGCAG|ATA 1 1 18.366
147771537 GT-AG 0 1.2499111809087617e-05 103 PHUM602110-RA 26649220 4 418321 418423 Pediculus humanus 121224 TGA|GTAAGTAAAT...TTTTCTTTTTCT/TGTAATCGAACA...TTCAG|TCA 1 1 24.301
147771538 GT-AG 0 1.000000099473604e-05 88 PHUM602110-RA 26649220 5 418579 418666 Pediculus humanus 121224 GAC|GTCGGTTCAC...CGGTTTTTAAAT/TTATTATTTATC...TCCAG|ATA 0 1 30.968
147771539 GT-AG 0 1.000000099473604e-05 88 PHUM602110-RA 26649220 6 418785 418872 Pediculus humanus 121224 TAG|GTGAGTAAAC...AATTTTTTGACG/ATTTTTTTAAAT...TTCAG|ACA 1 1 36.043
147771540 GT-AG 0 1.000000099473604e-05 671 PHUM602110-RA 26649220 7 418977 419647 Pediculus humanus 121224 ATG|GTTAGTTTGT...TTTTTTTTCGTT/GCGTTTGTTATA...TTTAG|AAC 0 1 40.516

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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]);