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 = 2107321

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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
11507100 GT-AG 0 1.000000099473604e-05 12448 rna-XM_009875557.1 2107321 1 2905 15352 Apaloderma vittatum 57397 CAT|GTAAGTATAA...GACTGTTTGATA/ACAGAACTGACT...TACAG|GAC 0 1 6.876
11507101 GT-AG 0 1.000000099473604e-05 15371 rna-XM_009875557.1 2107321 2 15522 30892 Apaloderma vittatum 57397 CAG|GTAAGAGAAT...TTTGTCTTCTCT/TCTCTATTGACA...TCTAG|GGA 1 1 17.944
11507102 GT-AG 0 1.000000099473604e-05 17814 rna-XM_009875557.1 2107321 3 31055 48868 Apaloderma vittatum 57397 GTG|GTAAGAAACC...GTATTTTTATAT/AGTATTTTTATA...TGTAG|ATA 1 1 28.553
11507103 GT-AG 0 5.413728170047436e-05 45177 rna-XM_009875557.1 2107321 4 49031 94207 Apaloderma vittatum 57397 AAG|GTAAGCTTAT...CTTTCCTTCCTA/AAAAACTTAATC...TTCAG|AAC 1 1 39.162
11507104 GT-AG 0 0.0049423021946992 1546 rna-XM_009875557.1 2107321 5 94363 95908 Apaloderma vittatum 57397 AAG|GTATGCTACA...TGGTTCTCATTT/TTGGTTCTCATT...TGCAG|TCC 0 1 49.312
11507105 GT-AG 0 2.142462081570056e-05 6206 rna-XM_009875557.1 2107321 6 96000 102205 Apaloderma vittatum 57397 AGA|GTAAGTATGG...GTGTCCTTTTTC/GAAGTTTTCATT...CGTAG|ACC 1 1 55.272
11507106 GT-AG 0 3.8951324561045086e-05 34989 rna-XM_009875557.1 2107321 7 102429 137417 Apaloderma vittatum 57397 AAG|GTAGGCTGGT...TCTCCTTTGGCT/GGTAGAGTGACC...TCTAG|GGA 2 1 69.876
11507107 GT-AG 0 1.000000099473604e-05 477 rna-XM_009875557.1 2107321 8 137674 138150 Apaloderma vittatum 57397 TGG|GTAAGTACTT...CATCTCTTCTCC/CAGCTTCCAACG...TGTAG|TAC 0 1 86.64

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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]);