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 = 22190674

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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
120267711 GT-AG 0 6.131977048126477e-05 543 rna-XM_022279126.1 22190674 2 1901397 1901939 Momordica charantia 3673 ACG|GTATGACCTT...TTCTCCTCACCA/TTTCTCCTCACC...TTCAG|TGG 2 1 6.831
120267712 GT-AG 0 1.000000099473604e-05 118 rna-XM_022279126.1 22190674 3 1902104 1902221 Momordica charantia 3673 CAG|GTGGTGCTAA...TTCTTTTTAAAT/AAATGTTTCACT...ATCAG|GTT 1 1 10.517
120267713 GC-AG 0 0.0072204387429031 85 rna-XM_022279126.1 22190674 4 1902348 1902432 Momordica charantia 3673 AAG|GCATTCTTTG...AGTCTCTTGATC/TGTTTCTTTATT...CTCAG|GAG 1 1 13.348
120267714 GT-AG 0 0.0001126922795486 203 rna-XM_022279126.1 22190674 5 1902544 1902746 Momordica charantia 3673 CAG|GTAATTTACT...AGCTCCTTATCT/CCTTATCTTATT...AACAG|TAA 1 1 15.843
120267715 GT-AG 0 0.0001821333212009 1000 rna-XM_022279126.1 22190674 6 1904147 1905146 Momordica charantia 3673 ATG|GTATTAGTTC...TTGTTTTTAAAC/TTGTTTTTAAAC...TGTAG|GAT 0 1 47.303
120272211 GT-AG 0 1.000000099473604e-05 646 rna-XM_022279126.1 22190674 1 1900600 1901245 Momordica charantia 3673 ATG|GTGAGTATTT...TATGTCGTATAT/TATATGTTCACA...TACAG|CTA   0 3.551
120272212 GT-AG 0 1.000000099473604e-05 117 rna-XM_022279126.1 22190674 7 1906936 1907052 Momordica charantia 3673 CAG|GTAAAACTTT...ACTTTCTTCATT/ACTTTCTTCATT...AGCAG|GGT   0 87.506

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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]);