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)

7 rows where transcript_id = 10113214

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Suggested facets: score, length, 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
55535386 GT-AG 0 1.000000099473604e-05 1080 rna-XM_023083886.1 10113214 2 2855052 2856131 Cucurbita moschata 3662 TTG|GTAAGAATAC...TGAATCTTCTCT/TTGGTGCTGAAT...TTCAG|CAG 1 1 31.527
55535387 GT-AG 0 2.9510967274693624e-05 85 rna-XM_023083886.1 10113214 3 2856203 2856287 Cucurbita moschata 3662 TTG|GTAAGTTTTC...TGGTTTATGATC/TATGATCTAATG...CTCAG|AAC 0 1 33.359
55535388 GT-AG 0 0.0042731690387473 89 rna-XM_023083886.1 10113214 4 2857807 2857895 Cucurbita moschata 3662 AAG|GTATGTATCT...CAATCCTTGATG/GTGTTGTTTATC...TGCAG|GTG 1 1 72.549
55535389 GT-AG 0 1.000000099473604e-05 179 rna-XM_023083886.1 10113214 5 2858150 2858328 Cucurbita moschata 3662 CAA|GTAATATATC...TTTTGCTTAAAA/TCAGTGTTTACT...TTTAG|GAT 0 1 79.102
55535390 GT-AG 0 1.840296941553004e-05 99 rna-XM_023083886.1 10113214 6 2858519 2858617 Cucurbita moschata 3662 CTG|GTAGGCACTA...TCAGTTTTGTCT/CCCTGGCTAATA...ATCAG|CAG 1 1 84.004
55535391 GT-AG 0 4.675914344991794e-05 99 rna-XM_023083886.1 10113214 7 2859228 2859326 Cucurbita moschata 3662 CTT|GTAAAGAATT...TTCCCCTTGATG/CTTTTGCTAACT...CTCAG|ATC 2 1 99.742
55540952 GT-AG 0 1.000000099473604e-05 95 rna-XM_023083886.1 10113214 1 2854753 2854847 Cucurbita moschata 3662 GAG|GTTAGCTTGT...TTCTTCTTCGTT/ATCGTTTTCAAA...ATCAG|AGT   0 27.632

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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]);