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 = 19533906

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
104744947 GT-AG 0 1.000000099473604e-05 13321 rna-XM_009950909.1 19533906 1 613 13933 Leptosomus discolor 188344 AAG|GTAATATGAC...ATCATTTTATAT/TCAATAATCATT...TGCAG|GAG 1 1 10.612
104744948 GT-AG 0 1.000000099473604e-05 4368 rna-XM_009950909.1 19533906 2 14101 18468 Leptosomus discolor 188344 AAG|GTGAGGGATG...GATACCTGAAAC/CTGTACCTGATA...TCTAG|TAT 0 1 21.484
104744949 GT-AG 0 6.297049503607581e-05 1448 rna-XM_009950909.1 19533906 3 18618 20065 Leptosomus discolor 188344 CCA|GTAAGTTGTA...ACAGCTCTGATG/ACAGCTCTGATG...TTCAG|ATG 2 1 31.185
104744950 GT-AG 0 1.1147955025088214e-05 2668 rna-XM_009950909.1 19533906 4 20290 22957 Leptosomus discolor 188344 GAG|GTTTGTGGAT...TTTGTCTTAGTT/ATTTGTCTTAGT...CGCAG|CCA 1 1 45.768
104744951 GT-AG 0 0.0043095680727592 631 rna-XM_009950909.1 19533906 5 23129 23759 Leptosomus discolor 188344 ATG|GTATGTTCGT...ATCTCCTTGAGA/GCATTTGTTATA...TTCAG|GTG 1 1 56.901
104744952 GT-AG 0 1.000000099473604e-05 1140 rna-XM_009950909.1 19533906 6 23906 25045 Leptosomus discolor 188344 GAG|GTAAGCAACC...TCTTTTTTATTC/GTCTTTTTTATT...GCCAG|GTT 0 1 66.406
104744953 GT-AG 0 6.461202049204727e-05 1621 rna-XM_009950909.1 19533906 7 25170 26790 Leptosomus discolor 188344 CAG|GTATGTGATG...CATTCCTTTTTC/CCTTTTTCCACC...TGCAG|TTG 1 1 74.479
104744954 GT-AG 0 0.0002131570089936 705 rna-XM_009950909.1 19533906 8 26976 27680 Leptosomus discolor 188344 GAG|GTACATAACT...ATTTCTTTAAAT/CTGTCTTTCATT...TGTAG|AAA 0 1 86.523

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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]);