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 = 8392237

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Suggested facets: 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
45169232 GT-AG 0 0.000332439569695 520 rna-XM_004486457.3 8392237 2 8109052 8109571 Cicer arietinum 3827 CAG|GTACTTTTTC...GATATCCTAATG/AGTTCATTCATC...TGCAG|GAT 0 1 39.13
45169233 GT-AG 0 0.0001966742847484 444 rna-XM_004486457.3 8392237 3 8109794 8110237 Cicer arietinum 3827 ACG|GTCTGCACTA...TGTTTCTCAGTA/CTGTTTCTCAGT...GACAG|GGT 0 1 45.318
45169234 GT-AG 0 2.4178354446942504e-05 538 rna-XM_004486457.3 8392237 4 8110307 8110844 Cicer arietinum 3827 GAG|GTAAGTTTTT...CCACTATTAATT/ATTGGTCTGATA...TTCAG|ATT 0 1 47.241
45169235 GT-AG 0 0.0011139551104659 101 rna-XM_004486457.3 8392237 5 8111115 8111215 Cicer arietinum 3827 ACG|GTTTGTTCCG...CATCTCTTGATC/CATCTCTTGATC...TGCAG|TGC 0 1 54.766
45169236 GT-AG 0 0.0153783180851768 534 rna-XM_004486457.3 8392237 6 8111567 8112100 Cicer arietinum 3827 CAG|GTATTCAATT...CCTTCTTTACCT/TCCTTCTTTACC...GGCAG|TAT 0 1 64.548
45169237 GT-AG 0 1.000000099473604e-05 164 rna-XM_004486457.3 8392237 7 8112379 8112542 Cicer arietinum 3827 AAG|GTTAGCCTCT...GTGGCCTTCGTT/TTTTGTTTAAAA...CATAG|GGT 2 1 72.297
45180629 GT-AG 0 0.0002012585100264 336 rna-XM_004486457.3 8392237 1 8107432 8107767 Cicer arietinum 3827 AAG|GTATGTTCAG...TGTTGTTTGAAA/GAATGTTTTATG...TGTAG|AGT   0 4.013

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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]);