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)

8 rows where transcript_id = 2107368

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Suggested facets: 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
11507719 GT-AG 0 0.0005981218929341 4572 rna-XM_009868535.1 2107368 1 86414 90985 Apaloderma vittatum 57397 CTG|GTATGTACAA...TTCTTTTTATCC/TTTCTTTTTATC...GACAG|CCT 0 1 3.382
11507720 GT-AG 0 0.0001629825080879 1873 rna-XM_009868535.1 2107368 2 84361 86233 Apaloderma vittatum 57397 AAG|GTAATCATAA...TCTCTCTTGACC/TCTCTCTTGACC...CCTAG|GAT 0 1 18.994
11507721 GT-AG 0 1.000000099473604e-05 898 rna-XM_009868535.1 2107368 3 83300 84197 Apaloderma vittatum 57397 ATG|GTAAGATGGC...TGTATTTTAAGT/ATAATGCTGACA...TTTAG|ATT 1 1 33.131
11507722 GT-AG 0 1.000000099473604e-05 1042 rna-XM_009868535.1 2107368 4 82158 83199 Apaloderma vittatum 57397 TAA|GTACAAGTGA...TACTCCGTGAGC/CGTGAGCTTAAG...GGAAG|CA 2 1 41.804
11507723 GT-AG 0 1.5587656229877984 5495 rna-XM_009868535.1 2107368 5 76661 82155 Apaloderma vittatum 57397 CA|GTCTGATGTA...TCTGTCTTCACT/TCTGTCTTCACT...TACAG|AAG 1 1 41.977
11507724 GT-AG 0 1.000000099473604e-05 493 rna-XM_009868535.1 2107368 6 76058 76550 Apaloderma vittatum 57397 AAG|GTAAGAAATA...TAATATTTAATG/TTAATATTTAAT...CCTAG|AAA 0 1 51.518
11507725 GT-AG 0 0.0027527418376858 1632 rna-XM_009868535.1 2107368 7 74349 75980 Apaloderma vittatum 57397 AAG|GTATATTGGT...TTTTCCTTTCTT/ATTGTAGTAATG...TGTAG|TAT 2 1 58.196
11507726 GT-AG 0 1.000000099473604e-05 1222 rna-XM_009868535.1 2107368 8 73043 74264 Apaloderma vittatum 57397 CTG|GTAAGTTGTT...TAATTTCTATTT/AAAAGACTAATC...TTCAG|GCA   0 65.481

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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]);