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 = 10922119

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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
60475431 GT-AG 0 1.000000099473604e-05 17927 rna-XM_022561085.1 10922119 3 1781739 1799665 Delphinapterus leucas 9749 TCG|GTCAGACAAT...CCTTCCTTCCCA/TTCCTTCCCACC...TCCAG|CCA 0 1 16.46
60475432 GT-AG 0 1.000000099473604e-05 2090 rna-XM_022561085.1 10922119 4 1777954 1780043 Delphinapterus leucas 9749 CAG|GTAAGCCGCT...CGGCCCTTGTCC/CTTGTCCACAGT...TATAG|GCC 0 1 61.242
60475433 GT-AG 0 1.4771266027315566e-05 24175 rna-XM_022561085.1 10922119 5 1753656 1777830 Delphinapterus leucas 9749 ATT|GTGAGCCTTT...TATTTCTTTTCT/CTGAATCTCATC...CCAAG|GAT 0 1 64.491
60475434 GT-AG 0 2.9371938837335135e-05 8528 rna-XM_022561085.1 10922119 6 1745005 1753532 Delphinapterus leucas 9749 CTG|GTAATTTCCA...TATTTCTTGGTA/TTCTTTTTCATC...TTTAG|CAA 0 1 67.741
60475435 GT-AG 0 1.000000099473604e-05 995 rna-XM_022561085.1 10922119 7 1743925 1744919 Delphinapterus leucas 9749 AAG|GTAAGCACTT...ATGCCTTTGGAA/TTGGAACTGACC...TGTAG|CCG 1 1 69.987
60475773 GT-AG 0 1.000000099473604e-05 731 rna-XM_022561085.1 10922119 1 1857694 1858424 Delphinapterus leucas 9749 CAG|GTTAGGAAAC...TTCTCTTTCTCT/ATCTCTCTCATT...GCCAG|GGC   0 4.333
60475774 GT-AG 0 1.000000099473604e-05 57506 rna-XM_022561085.1 10922119 2 1799825 1857330 Delphinapterus leucas 9749 GAG|GTGAGTGCGC...ATCTTCGTATCT/AATGGTCTCATC...CTAAG|CCC   0 13.923

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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]);