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 = 12720313

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
67622967 GT-AG 0 1.000000099473604e-05 15579 rna-XM_009910859.1 12720313 1 1167230 1182808 Dryobates pubescens 118200 TTG|GTGAGGGGCC...TCTCCCTTTTCT/GCAAAACTTAGG...GTCAG|GAA 1 1 19.872
67622968 GT-AG 0 1.000000099473604e-05 1251 rna-XM_009910859.1 12720313 2 1182870 1184120 Dryobates pubescens 118200 ATG|GTAAGTATTC...TTATTTTTATTG/GTTATTTTTATT...TTTAG|GGA 2 1 29.647
67622969 GT-AG 0 1.000000099473604e-05 1360 rna-XM_009910859.1 12720313 3 1184182 1185541 Dryobates pubescens 118200 ATG|GTGAGTGCTC...ATGCTCTTCATT/ATGCTCTTCATT...TTTAG|GGA 0 1 39.423
67622970 GT-AG 0 1.000000099473604e-05 2070 rna-XM_009910859.1 12720313 4 1185620 1187689 Dryobates pubescens 118200 GAG|GTAGGTGCTT...TTTTTTTTTTCT/TGGTTCCTGAGA...TTCAG|CAT 0 1 51.923
67622971 GT-AG 0 0.0015568903813933 766 rna-XM_009910859.1 12720313 5 1187780 1188545 Dryobates pubescens 118200 AAG|GTAAGCTTTG...AAAACTTTAACC/AAAACTTTAACC...TCCAG|TTA 0 1 66.346
67622972 GT-AG 0 1.000000099473604e-05 2108 rna-XM_009910859.1 12720313 6 1188612 1190719 Dryobates pubescens 118200 GAG|GTAAGAGATG...GTTTTGTTATTT/TTGTGACTAATT...ACCAG|GCA 0 1 76.923
67622973 GT-AG 0 0.0002935112848394 468 rna-XM_009910859.1 12720313 7 1190771 1191238 Dryobates pubescens 118200 ATG|GTTTGTATTT...CTTTTTTTGATG/CTTTTTTTGATG...TTCAG|AAT 0 1 85.096

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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]);