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 = 38015503

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Suggested facets: dinucleotide_pair, 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
209850083 GT-AG 0 1.000000099473604e-05 870 rna-XM_028059379.1 38015503 2 30354105 30354974 Vigna unguiculata 3917 AAG|GTACTGACAT...CGTCTCTTATTG/TCGTCTCTTATT...TACAG|TTT 0 1 8.901
209850084 GT-AG 0 1.000000099473604e-05 78 rna-XM_028059379.1 38015503 3 30355344 30355421 Vigna unguiculata 3917 ATT|GTAAGTGTGG...AACTTTTTCACA/AACTTTTTCACA...GTTAG|GTA 0 1 17.974
209850085 GT-AG 0 0.6073841082698329 1902 rna-XM_028059379.1 38015503 4 30355682 30357583 Vigna unguiculata 3917 CAG|GTATCTATCC...TATTTTTTACTG/TTATTTTTTACT...ATCAG|GTT 2 1 24.367
209850086 GT-AG 0 1.000000099473604e-05 156 rna-XM_028059379.1 38015503 5 30357726 30357881 Vigna unguiculata 3917 GAG|GTGTGACTTG...TCTACCTAAAAT/CTGCCATTCACT...ATTAG|GTA 0 1 27.858
209850087 GT-AG 0 1.000000099473604e-05 119 rna-XM_028059379.1 38015503 6 30358254 30358372 Vigna unguiculata 3917 GAG|GTAATTCAAG...TAAGTTTTCATG/TAAGTTTTCATG...CTCAG|GAT 0 1 37.005
209850088 GC-AG 0 2.745885294843033e-05 74 rna-XM_028059379.1 38015503 7 30358505 30358578 Vigna unguiculata 3917 CAG|GCATGTTTAG...CCTTCTTTATCA/CCGTGTCTTATC...TTCAG|GTT 0 1 40.251
209850089 GT-AG 0 1.9955861093590425e-05 121 rna-XM_028059379.1 38015503 8 30358708 30358828 Vigna unguiculata 3917 CAG|GTCTTTGTTA...ATTTGTTTATTT/AATTTGTTTATT...TATAG|ATG 0 1 43.423
209860032 GT-AG 0 1.000000099473604e-05 117 rna-XM_028059379.1 38015503 1 30353817 30353933 Vigna unguiculata 3917 CCG|GTTCGATTTT...CTTGTTTTATTT/TCGTATCTGATT...AATAG|ATT   0 5.803

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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]);