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 = 15733593

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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
84902095 GT-AG 0 0.005375426241254 111 rna-XM_017749399.1 15733593 1 108480760 108480870 Gossypium arboreum 29729 AAG|GTATTTTTAT...TTCTTGTTGATC/TTCTTGTTGATC...TGTAG|GAG 2 1 31.056
84902096 GT-AG 0 0.0001707689103185 1192 rna-XM_017749399.1 15733593 2 108478953 108480144 Gossypium arboreum 29729 AGT|GTAAGTTTGT...GTATTGTTAAAC/TTGTTACTGATA...TGCAG|ATT 2 1 43.45
84902097 GT-AG 0 0.0001241463193809 670 rna-XM_017749399.1 15733593 3 108477142 108477811 Gossypium arboreum 29729 ACA|GTAAGTATTT...ATATTATTAATC/TATTTTCTGATA...TACAG|TTA 0 1 66.445
84902098 GT-AG 0 0.0002705496068179 99 rna-XM_017749399.1 15733593 4 108476754 108476852 Gossypium arboreum 29729 AAG|GTCTGCACTT...ATTTCTTTAAAG/ATGATTCTGAAT...TGCAG|GTG 1 1 72.269
84902099 GT-AG 0 5.085790739355409e-05 2279 rna-XM_017749399.1 15733593 5 108474350 108476628 Gossypium arboreum 29729 CAG|GTATGACTTC...AATCTTTTGAAT/TTATTTTTCATA...TTCAG|GTA 0 1 74.788
84902100 GT-AG 0 1.000000099473604e-05 552 rna-XM_017749399.1 15733593 6 108473337 108473888 Gossypium arboreum 29729 CAG|GTAGAAACAA...CTTTTTTTATTA/TCTTTTTTTATT...GGCAG|GGA 2 1 84.079
84902101 GT-AG 0 1.000000099473604e-05 161 rna-XM_017749399.1 15733593 7 108473147 108473307 Gossypium arboreum 29729 AGG|GTAAGTGGTG...TTTTCTTTACAT/ACATTTCTAATT...TTTAG|GGT 1 1 84.663
84902102 GT-AG 0 3.169044801662286e-05 135 rna-XM_017749399.1 15733593 8 108472397 108472531 Gossypium arboreum 29729 AAG|GTAATTAATT...TTTTTCTTAATA/CTTTTTCTTAAT...TGCAG|AAT 1 1 97.058

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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]);