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 = 24462881

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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
133657900 GT-AG 0 1.000000099473604e-05 6645 rna-XM_004391479.2 24462881 1 2215307 2221951 Odobenus rosmarus 9707 AAG|GTAAGGTAAC...TTTATCCTGACT/TTTATCCTGACT...CCTAG|GTT 1 1 12.13
133657901 GT-AG 0 1.000000099473604e-05 2527 rna-XM_004391479.2 24462881 2 2212570 2215096 Odobenus rosmarus 9707 CTG|GTGAGTCCCT...TTTTCCTGAAAT/AGTTTTTTCAGT...TTCAG|AGC 1 1 32.187
133657902 GT-AG 0 1.000000099473604e-05 4898 rna-XM_004391479.2 24462881 3 2207607 2212504 Odobenus rosmarus 9707 AAG|GTAAAGAAAC...TGCGTATTGATT/TGCGTATTGATT...TTTAG|GAA 0 1 38.395
133657903 GT-AG 0 1.000000099473604e-05 3423 rna-XM_004391479.2 24462881 4 2204040 2207462 Odobenus rosmarus 9707 AAA|GTAAGAGGCA...GTGACTCTAATA/TATTTGCTCATT...GTCAG|ATT 0 1 52.149
133657904 GT-AG 0 1.000000099473604e-05 1369 rna-XM_004391479.2 24462881 5 2202589 2203957 Odobenus rosmarus 9707 AAG|GTGAGATTAA...ATAACCTTCATG/ATAATTATAACC...ATCAG|AAA 1 1 59.981
133657905 GT-AG 0 1.000000099473604e-05 872 rna-XM_004391479.2 24462881 6 2201530 2202401 Odobenus rosmarus 9707 TAG|GTAATTAGAT...TTCTCTTTCTCC/GTGAATTTCATT...CTTAG|AGT 2 1 77.841
133657906 GT-AG 0 1.000000099473604e-05 1483 rna-XM_004391479.2 24462881 7 2200003 2201485 Odobenus rosmarus 9707 AAG|GTTAAGTACA...TTGGTCTTATTT/TTTGGTCTTATT...TTCAG|AGG 1 1 82.044

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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]);