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)

9 rows where transcript_id = 5773940

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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
29498632 GT-AG 0 0.0256225558495745 82 rna-XM_029272077.1 5773940 1 16965247 16965328 Cajanus cajan 3821 TTG|GTATGCTATT...AGTTTTTTATAG/TAGTTTTTTATA...TGCAG|GTT 0 1 16.145
29498633 GT-AG 0 1.000000099473604e-05 134 rna-XM_029272077.1 5773940 2 16964864 16964997 Cajanus cajan 3821 AAG|GTGTGTATTG...TACTTATTAATG/TCATTACTTATT...TGCAG|GTC 0 1 19.69
29498634 GT-AG 0 1.000000099473604e-05 2484 rna-XM_029272077.1 5773940 3 16961666 16964149 Cajanus cajan 3821 GAG|GTAAGTAAGG...TCACTTTTATTT/TTTTATTTCATT...TCTAG|CTT 0 1 29.855
29498635 GT-AG 0 5.715332720639487e-05 265 rna-XM_029272077.1 5773940 4 16960585 16960849 Cajanus cajan 3821 AAG|GTACTTACAT...TATTTTTTATCT/TTATTTTTTATC...TACAG|GTT 0 1 41.472
29498636 GT-AG 0 1.000000099473604e-05 1232 rna-XM_029272077.1 5773940 5 16958702 16959933 Cajanus cajan 3821 AAG|GTAATTCTTA...TTGTTCTTCTTT/AATATGTTTATT...TATAG|GTT 0 1 50.74
29498637 GT-AG 0 4.3758187270037975e-05 3336 rna-XM_029272077.1 5773940 6 16954526 16957861 Cajanus cajan 3821 AAG|GTACGGATCC...TTTTCTTTAACT/TTTTCTTTAACT...GGTAG|CTT 0 1 62.699
29498638 GT-AG 0 0.003048164606549 1144 rna-XM_029272077.1 5773940 7 16952470 16953613 Cajanus cajan 3821 AAG|GTATGTGTTC...TTTATCTTATTT/CTTATTTTTATT...TGCAG|ATT 0 1 75.683
29498639 GT-AG 0 1.000000099473604e-05 1217 rna-XM_029272077.1 5773940 8 16950647 16951863 Cajanus cajan 3821 GAG|GTTTGAGCTT...ACTCTCTTAATC/TTTTGGTTGATT...CACAG|ATT 0 1 84.311
29502966 GT-AG 0 1.000000099473604e-05 2265 rna-XM_029272077.1 5773940 9 16947595 16949859 Cajanus cajan 3821 AAG|GTCGGGTATG...GTTTCTATATTT/ATTATTATTATT...TGTAG|GTT   0 95.515

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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]);