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 = 12720334

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Suggested facets: dinucleotide_pair, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
67623215 GT-AG 0 1.000000099473604e-05 686 rna-XM_009901888.1 12720334 1 171629 172314 Dryobates pubescens 118200 ACG|GTGAGTCTCC...CAGCCCTCACTC/GCAGCCCTCACT...CACAG|GTG 1 1 3.83
67623216 GT-AG 0 1.000000099473604e-05 114 rna-XM_009901888.1 12720334 2 172436 172549 Dryobates pubescens 118200 AGT|GTGAGTACAG...GAGCCCCTGGCA/ACTGCTCTCATG...CACAG|CTA 2 1 11.071
67623217 GT-AG 0 1.000000099473604e-05 247 rna-XM_009901888.1 12720334 3 172729 172975 Dryobates pubescens 118200 AAG|GTAGGGTCAG...AAGCCTCTGACG/AAGCCTCTGACG...TGCAG|CCA 1 1 21.783
67623218 GT-AG 0 1.000000099473604e-05 669 rna-XM_009901888.1 12720334 4 173143 173811 Dryobates pubescens 118200 ACG|GTGAGAGGAG...AGTCTCTGCTCT/TACCAGCCCAGT...TGCAG|TAC 0 1 31.777
67623219 GT-AG 0 1.000000099473604e-05 127 rna-XM_009901888.1 12720334 5 173963 174089 Dryobates pubescens 118200 ACA|GTAAGTGACA...CTCTCCCTGCTC/TCCCTGCTCAGC...TGCAG|GGG 1 1 40.814
67623220 GT-AG 0 1.000000099473604e-05 104 rna-XM_009901888.1 12720334 6 174215 174318 Dryobates pubescens 118200 CTG|GTAAGGCAGC...CCTCTCTTGTCT/GCACAGCTCACC...CCCAG|AAG 0 1 48.294
67623221 TC-AG 0 1.000000099473604e-05 105 rna-XM_009901888.1 12720334 7 174613 174717 Dryobates pubescens 118200 TCC|TCCAGCCCCG...CACACCCTGCTG/CCCGGCCCCACA...GGCAG|GGC 0 1 65.889

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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]);