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 = 12917280

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
68847667 GT-AG 0 1.000000099473604e-05 5448 rna-XM_035894876.1 12917280 1 562427 567874 Egretta garzetta 188379 AAG|GTAAATCTTT...GTTTCTGTATTA/TCTGTATTAAAA...TACAG|GAT 0 1 12.532
68847668 GT-AG 0 0.0007744766787379 3981 rna-XM_035894876.1 12917280 2 558230 562210 Egretta garzetta 188379 GAG|GTATGTCTGT...TTTGCCTTCATC/TTTGCCTTCATC...TCCAG|GTT 0 1 30.946
68847669 GT-AG 0 1.000000099473604e-05 2510 rna-XM_035894876.1 12917280 3 555647 558156 Egretta garzetta 188379 AAG|GTAGGCAAAG...TGTCCCTTCCCC/TTGCTAATAAAA...TTTAG|GTT 1 1 37.17
68847670 GT-AG 0 1.000000099473604e-05 792 rna-XM_035894876.1 12917280 4 554718 555509 Egretta garzetta 188379 AAG|GTAAGATGGA...GAGATCTGGACG/TTGCTGCTAACC...TCTAG|CTC 0 1 48.849
68847671 GT-AG 0 1.000000099473604e-05 702 rna-XM_035894876.1 12917280 5 553866 554567 Egretta garzetta 188379 ACG|GTGAGTGTTT...GTCTTCTAAGTG/AGTCTTCTAAGT...ACTAG|CTC 0 1 61.637
68847672 GT-AG 0 1.000000099473604e-05 414 rna-XM_035894876.1 12917280 6 553306 553719 Egretta garzetta 188379 CAG|GTAAGAGCAG...TTTTTTTTTTTT/TACTATATGACA...GTCAG|GTC 2 1 74.084
68847673 GT-AG 0 1.000000099473604e-05 1223 rna-XM_035894876.1 12917280 7 551950 553172 Egretta garzetta 188379 TCG|GTAGGTGCCC...AGTTTCTTTTCT/CTTTGTTTCAAG...CTTAG|AAA 0 1 85.422

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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]);