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 = 14424045

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Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
77101724 GT-AG 0 1.000000099473604e-05 351 rna-XM_006414304.2 14424045 3 10789462 10789812 Eutrema salsugineum 72664 CAG|GTTAGTTTCC...ACTTTCTTAATC/ACTTTCTTAATC...TTCAG|GAA 2 1 29.45
77101725 GT-AG 0 1.0298218694740555e-05 164 rna-XM_006414304.2 14424045 4 10789156 10789319 Eutrema salsugineum 72664 AGA|GTAAGTCTGT...TTTTTTTTTTTT/TGGTTTCTAATA...GACAG|GGT 0 1 32.189
77101726 GT-AG 0 9.209679878388468e-05 109 rna-XM_006414304.2 14424045 5 10786824 10786932 Eutrema salsugineum 72664 CTG|GTAAGCTTAG...TGAATTTTATTG/ATGAATTTTATT...ATTAG|GAT 0 1 75.063
77101727 GT-AG 0 5.913867593578116e-05 166 rna-XM_006414304.2 14424045 6 10786564 10786729 Eutrema salsugineum 72664 CAG|GTATTGGTTA...TTTCTCTAAGTT/AAGTTGCTTACT...TGCAG|GCA 1 1 76.876
77101728 GC-AG 0 1.000000099473604e-05 145 rna-XM_006414304.2 14424045 7 10786081 10786225 Eutrema salsugineum 72664 AAG|GCAAGTTTTT...TGTTTGTTAACA/TGTTTGTTAACA...TGCAG|GCA 0 1 83.394
77101729 GT-AG 0 1.000000099473604e-05 104 rna-XM_006414304.2 14424045 8 10785257 10785360 Eutrema salsugineum 72664 AAG|GTCTGTGACT...TAATTCTTGTTT/CTGAAGTTAATA...ATCAG|GTA 0 1 97.281
77101730 GT-AG 0 1.000000099473604e-05 213 rna-XM_006414304.2 14424045 9 10784969 10785181 Eutrema salsugineum 72664 AAG|GTTTGTAAAA...AAGTTTTTAATC/AAGTTTTTAATC...TGCAG|ATT 0 1 98.727

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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]);