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 = 23404116

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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
127495224 GT-AG 0 1.000000099473604e-05 2005 rna-XM_024741744.1 23404116 1 356450 358454 Neophocaena asiaeorientalis 189058 CAG|GTAACACAGT...TTGCTCTTTTTG/GAAATACTGACT...CCTAG|GTC 1 1 9.59
127495225 GT-AG 0 1.000000099473604e-05 5765 rna-XM_024741744.1 23404116 2 358606 364370 Neophocaena asiaeorientalis 189058 CAA|GTAAGTCTGT...TGACCCTCAACA/GTTCTCCTGACC...TGCAG|GTC 2 1 19.577
127495226 GT-AG 0 0.001179168949815 2175 rna-XM_024741744.1 23404116 3 364526 366700 Neophocaena asiaeorientalis 189058 AAG|GTATTCAGAT...CTCACTCTGACG/AGGCGGCTCACT...TTCAG|CTT 1 1 29.828
127495227 GT-AG 0 1.000000099473604e-05 2907 rna-XM_024741744.1 23404116 4 366878 369784 Neophocaena asiaeorientalis 189058 ACG|GTACTGAAAT...CTGTTCTGATCT/TTTTTGCTCATC...TCCAG|AAA 1 1 41.534
127495228 GT-AG 0 1.000000099473604e-05 3610 rna-XM_024741744.1 23404116 5 369900 373509 Neophocaena asiaeorientalis 189058 TGT|GTAAGTAACA...GATATCATATCT/ATAATATTTACA...TCCAG|CGA 2 1 49.14
127495229 GT-AG 0 1.000000099473604e-05 436 rna-XM_024741744.1 23404116 6 373625 374060 Neophocaena asiaeorientalis 189058 GAG|GTACAGACCT...CCGCTTTCAACT/CGTTCATTCACG...TTCAG|AAA 0 1 56.746
127495230 GT-AG 0 1.000000099473604e-05 6525 rna-XM_024741744.1 23404116 7 374224 380748 Neophocaena asiaeorientalis 189058 TTG|GTAAGAATTT...TCCTTTTTATCT/TTTTATCTGATC...CACAG|GTG 1 1 67.526
127495231 GT-AG 0 1.000000099473604e-05 1220 rna-XM_024741744.1 23404116 8 380991 382210 Neophocaena asiaeorientalis 189058 AAT|GTAAGAGCCC...TAGCCTTTACTT/AATTGTCTGATC...CCTAG|GTT 0 1 83.532

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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]);