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 = 19079938

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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
101756992 GT-AG 0 1.000000099473604e-05 12305 rna-XM_042880087.1 19079938 1 11200593 11212897 Lagopus leucura 30410 CAG|GTAAAGCGGG...GTCTCCTTCCTC/ATGTGTCTCAAA...TCTAG|GAG 1 1 7.326
101756993 GT-AG 0 1.000000099473604e-05 4580 rna-XM_042880087.1 19079938 2 11213042 11217621 Lagopus leucura 30410 GAG|GTAAGAAGGA...TGTTTTTTAATC/TGTTTTTTAATC...TATAG|GCA 1 1 12.326
101756994 GT-AG 0 8.258568194014061e-05 1930 rna-XM_042880087.1 19079938 3 11217659 11219588 Lagopus leucura 30410 AAG|GTAAACAGTA...TGAGCCTTATCA/ATGAGCCTTATC...TCCAG|CAC 2 1 13.611
101756995 GT-AG 0 1.000000099473604e-05 3500 rna-XM_042880087.1 19079938 4 11219729 11223228 Lagopus leucura 30410 GAG|GTGAGATATT...TATGCCTTGTTT/TTTGTTCTTATG...AACAG|AGC 1 1 18.472
101756996 GT-AG 0 1.0074412397836016e-05 12851 rna-XM_042880087.1 19079938 5 11223359 11236209 Lagopus leucura 30410 GAG|GTAAGTTTTG...CTGTTTTTTTTT/GCACATCTCACT...CCCAG|TTC 2 1 22.986
101756997 GT-AG 0 1.000000099473604e-05 13463 rna-XM_042880087.1 19079938 6 11236424 11249886 Lagopus leucura 30410 CAG|GTAATAAGCA...TTATTTTTATTC/TTTATTTTTATT...AACAG|TAC 0 1 30.417
101756998 GT-AG 0 5.5451815956986014e-05 9935 rna-XM_042880087.1 19079938 7 11249954 11259888 Lagopus leucura 30410 CAG|GTAAGTTTTT...GTTTTTTTATTT/TGTTTTTTTATT...CCTAG|GTG 1 1 32.743
101756999 GT-AG 0 1.000000099473604e-05 6243 rna-XM_042880087.1 19079938 8 11260017 11266259 Lagopus leucura 30410 AAG|GTAAGATTAG...CTTCTTTTATTT/GCTTCTTTTATT...TACAG|ATC 0 1 37.188

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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]);