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 = 12758639

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Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
67905202 GT-AG 0 1.000000099473604e-05 122 rna-XM_022882920.1 12758639 2 3909530 3909651 Durio zibethinus 66656 GAG|GTGAGTGAAT...TTTTTCTTATAA/TTTTTTCTTATA...TGCAG|GAT 2 1 47.29
67905203 GT-AG 0 1.000000099473604e-05 384 rna-XM_022882920.1 12758639 3 3909785 3910168 Durio zibethinus 66656 GGG|GTAAGCGGGA...GTCCCCTTGCCT/CCTGGTCTGAAT...TACAG|GTC 0 1 52.366
67905204 GT-AG 0 0.0068638039151404 477 rna-XM_022882920.1 12758639 4 3910410 3910886 Durio zibethinus 66656 AAG|GTATCAGTTA...TAAACTTTTATG/TTTATGCTAAAT...TACAG|ATG 1 1 61.565
67905205 GT-AG 0 1.000000099473604e-05 136 rna-XM_022882920.1 12758639 5 3911113 3911248 Durio zibethinus 66656 CCG|GTAAGGCAAT...TTGTTGTTACCA/GTGGTCCTGATT...TCCAG|GAA 2 1 70.191
67905206 GT-AG 0 1.8950543828266385e-05 126 rna-XM_022882920.1 12758639 6 3911425 3911550 Durio zibethinus 66656 ATG|GTAATTTGAT...TCTTTTTTATAT/ATCTTTTTTATA...ATCAG|GTC 1 1 76.908
67905207 GT-AG 0 4.191695459164674e-05 433 rna-XM_022882920.1 12758639 7 3911858 3912290 Durio zibethinus 66656 TTG|GTAATTCTCT...CCATCTTTATCA/TAATGTTTTATT...TTCAG|GTG 2 1 88.626
67905208 GT-AG 0 1.000000099473604e-05 867 rna-XM_022882920.1 12758639 8 3912430 3913296 Durio zibethinus 66656 GAG|GTACTACAAT...TATGTTTTAATA/TATGTTTTAATA...TGCAG|GGT 0 1 93.931
67907167 GT-AG 0 0.0060291450914412 688 rna-XM_022882920.1 12758639 1 3908123 3908810 Durio zibethinus 66656 AAG|GTACTTTTTT...TATTTCTTGAAA/TATTTCTTGAAA...TTCAG|GTT   0 20.191

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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]);