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 = 24216008

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
132130066 GT-AG 0 0.0004981491419617 604 rna-XM_031630677.1 24216008 2 39542222 39542825 Nymphaea colorata 210225 GAG|GTATGCACAT...AATGCTTTTTTG/TATGTATGAACT...GTCAG|CTG 0 1 52.534
132130067 GT-AG 0 0.0001650798933728 1699 rna-XM_031630677.1 24216008 3 39542984 39544682 Nymphaea colorata 210225 GAG|GTATGTACTT...TCTGCTTAGACA/TCATTTTTCATC...AACAG|GGA 2 1 56.771
132130068 GT-AG 0 1.824602579986244e-05 864 rna-XM_031630677.1 24216008 5 39545580 39546443 Nymphaea colorata 210225 CAG|GTTTGTCTTC...CATTTTTTGGTG/ATCTGTTTCATT...CTCAG|CTA 0 1 80.772
132130069 GT-AG 0 0.1896056861230505 499 rna-XM_031630677.1 24216008 6 39546591 39547089 Nymphaea colorata 210225 GAG|GTATCTGTTT...CTTTTCTTTTCA/TTTCTTTTCATT...TACAG|AAA 0 1 84.714
132130070 GT-AG 0 1.7912648298061377e-05 81 rna-XM_031630677.1 24216008 7 39547408 39547488 Nymphaea colorata 210225 AAG|GTTTGTGTTC...ATAATTTTATTT/AATAATTTTATT...TTCAG|AAC 0 1 93.242
132130071 GT-AG 0 0.0023218143081052 205 rna-XM_031630677.1 24216008 8 39547549 39547753 Nymphaea colorata 210225 GAG|GTACTTTTTT...TGTTGCTTATTC/GTGTTGCTTATT...CACAG|GTT 0 1 94.851
132142850 GT-AG 0 1.000000099473604e-05 764 rna-XM_031630677.1 24216008 1 39539674 39540437 Nymphaea colorata 210225 AAG|GTGAGATTTA...TTTTTTTTTTTT/AACTTTCTCACA...TGCAG|TTG   0 6.195

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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]);