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)

6 rows where transcript_id = 3485130

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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
17203228 GT-AG 0 1.000000099473604e-05 3418 rna-gnl|WGS:SAUD|Avbf_05949-RA_mrna 3485130 2 97501 100918 Armadillidium vulgare 13347 GAG|GTAAGGAATT...TATGCATTAATT/TATGCATTAATT...TTAAG|ATT 1 1 43.756
17203229 GT-AG 0 3.963876422914703e-05 552 rna-gnl|WGS:SAUD|Avbf_05949-RA_mrna 3485130 3 96769 97320 Armadillidium vulgare 13347 TAG|GTAATCTGAT...TACTTTATAATC/TACTTTATAATC...TCCAG|AAC 1 1 59.928
17203230 GT-AG 0 1.000000099473604e-05 409 rna-gnl|WGS:SAUD|Avbf_05949-RA_mrna 3485130 4 96208 96616 Armadillidium vulgare 13347 GCA|GTCGGAGCTC...TATATATTATAT/ATATATATTATA...TATAG|GGT 0 1 73.585
17203231 GT-AG 0 1.000000099473604e-05 119 rna-gnl|WGS:SAUD|Avbf_05949-RA_mrna 3485130 5 95998 96116 Armadillidium vulgare 13347 TAG|GTGATCATTC...TATTTTTTTTTT/TTATAAATAATA...TTTAG|GCA 1 1 81.761
17203232 GT-AG 0 1.000000099473604e-05 4776 rna-gnl|WGS:SAUD|Avbf_05949-RA_mrna 3485130 6 91037 95812 Armadillidium vulgare 13347 AGT|GTAAGTCTAA...ATTTCCCCAGTT/GAAAAGCTCATC...TTAAG|TTG 0 1 98.383
17203238 GT-AG 0 1.000000099473604e-05 326 rna-gnl|WGS:SAUD|Avbf_05949-RA_mrna 3485130 1 101152 101477 Armadillidium vulgare 13347 TGG|GTGAGTTCAA...ACTATCTTATAA/AGTTTGTTCATT...TTCAG|AAA   0 23.72

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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]);