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 = 21931002

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Suggested facets: score, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
118866910 GT-AG 0 1.000000099473604e-05 965 rna-XM_035025820.1 21931002 1 2636233 2637197 Mirounga leonina 9715 TGG|GTGAGAGATG...TCTCTCTTCTCT/CAGTGTATAACT...CATAG|ATC 0 1 6.11
118866911 GT-AG 0 1.000000099473604e-05 278 rna-XM_035025820.1 21931002 2 2637387 2637664 Mirounga leonina 9715 CTG|GTGAGTCCTT...TGTATCTTATTT/TTTATGCTGACT...CACAG|TAT 0 1 19.382
118866912 GT-AG 0 5.405884766738704e-05 871 rna-XM_035025820.1 21931002 3 2637740 2638610 Mirounga leonina 9715 GAG|GTAAGCCTGA...GAATCTTTATTT/TCTTTATTTACT...TGTAG|ATT 0 1 24.649
118866913 GT-AG 0 1.000000099473604e-05 735 rna-XM_035025820.1 21931002 4 2638710 2639444 Mirounga leonina 9715 AAG|GTAAGTGGTC...AAAGCTGTGATG/TTTTGTTGGATT...TTCAG|TTG 0 1 31.601
118866914 GT-AG 0 1.000000099473604e-05 413 rna-XM_035025820.1 21931002 5 2639580 2639992 Mirounga leonina 9715 GAA|GTAAGGAGCC...TGTTCATTATTG/TTGTTTTTCATC...ATTAG|GGT 0 1 41.081
118866915 GT-AG 0 1.000000099473604e-05 1391 rna-XM_035025820.1 21931002 6 2640077 2641467 Mirounga leonina 9715 CAG|GTAAGTCCTT...GTGTGTTTAATT/TTGTATTTTATT...TCTAG|CTG 0 1 46.98
118866990 GT-AG 0 0.0007296095647241 610 rna-XM_035025820.1 21931002 7 2641574 2642183 Mirounga leonina 9715 AAG|GTATGTTCAT...TTTTTCTTTACT/TTTTTCTTTACT...TTTAG|GAC   0 54.424

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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]);