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 = 7738681

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
40790840 GT-AG 0 1.000000099473604e-05 163 rna-XM_009885457.1 7738681 1 91341 91503 Charadrius vociferus 50402 CAG|GTAAAGCCCA...CACACTTAAACT/CTTAAACTAATG...TTCAG|AGT 1 1 15.841
40790841 GT-AG 0 1.000000099473604e-05 550 rna-XM_009885457.1 7738681 2 91715 92264 Charadrius vociferus 50402 AAG|GTAAGGCAGA...TGTTTTTTCTCT/ATAACTCTCAGA...TTTAG|AAA 2 1 31.682
40790842 GT-AG 0 1.521652261476722e-05 100 rna-XM_009885457.1 7738681 3 92431 92530 Charadrius vociferus 50402 AAG|GTTTGATTTC...TTTTTTTTTTCC/TAGTAACAGATT...ACCAG|GGC 0 1 44.144
40790843 GT-AG 0 4.954020126977856e-05 835 rna-XM_009885457.1 7738681 4 92625 93459 Charadrius vociferus 50402 GGT|GTAAGTAACT...CTCTTTTTATCA/ATTCTTCTAAAT...TGCAG|TTC 1 1 51.201
40790844 GT-AG 0 1.000000099473604e-05 272 rna-XM_009885457.1 7738681 5 93502 93773 Charadrius vociferus 50402 ATG|GTAAGCAATG...CACATTTGGACT/TTAGGAGTGACA...TTCAG|GTT 1 1 54.354
40790845 GT-AG 0 1.000000099473604e-05 427 rna-XM_009885457.1 7738681 6 93929 94355 Charadrius vociferus 50402 AAA|GTAAGTAAAG...CTTCTCTTAAAT/CTTTTTTTTACC...CCTAG|ATG 0 1 65.991
40790846 GT-AG 0 1.000000099473604e-05 636 rna-XM_009885457.1 7738681 7 94504 95139 Charadrius vociferus 50402 ATG|GTAAGGCTTT...CCTGTTTTAATT/CCTGTTTTAATT...TGCAG|AGC 1 1 77.102
40790847 GT-AG 0 1.000000099473604e-05 615 rna-XM_009885457.1 7738681 8 95214 95828 Charadrius vociferus 50402 CTG|GTGAGAGAAC...TTTGCTTTTTTT/AGTATACTGATT...CAAAG|GTT 0 1 82.658

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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]);