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 = 31460390

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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
175008264 GT-AG 0 2.5831497785445703e-05 64110 rna-XM_036222087.1 31460390 1 165696152 165760261 Rousettus aegyptiacus 9407 AAG|GTGACTTGAT...GATTCCTTCTCT/AGAAGCTTAATT...CACAG|CGG 1 1 4.116
175008265 GT-AG 0 1.000000099473604e-05 17019 rna-XM_036222087.1 31460390 2 165678980 165695998 Rousettus aegyptiacus 9407 GGG|GTAAGACTGC...GGTGTTTTATAA/GGGTGTTTTATA...TGCAG|AAT 1 1 7.233
175008266 GT-AG 0 1.000000099473604e-05 17625 rna-XM_036222087.1 31460390 3 165661227 165678851 Rousettus aegyptiacus 9407 AAG|GTAAGGCTTC...TCTGTCTTTTCC/CAGCTACTTACA...TGCAG|TGT 0 1 9.841
175008267 GT-AG 0 0.0968381683224313 4211 rna-XM_036222087.1 31460390 4 165656826 165661036 Rousettus aegyptiacus 9407 CTG|GTATGCTTTG...ATTGCTTTGCTT/TTGAAAATAACA...ATTAG|GGG 1 1 13.712
175008268 GT-AG 0 1.415886665212892e-05 5667 rna-XM_036222087.1 31460390 5 165651027 165656693 Rousettus aegyptiacus 9407 TAG|GTATGGCTCA...TTGGTTTTTATT/TTGGTTTTTATT...TTTAG|GTA 1 1 16.402
175008269 GT-AG 0 1.000000099473604e-05 515 rna-XM_036222087.1 31460390 6 165647263 165647777 Rousettus aegyptiacus 9407 GGC|GTGAGTCTGG...GCCTGCTTGCTT/ATTCAAGTCACT...CATAG|CTG 1 1 82.6
175008270 GT-AG 0 3.808121167521277 4320 rna-XM_036222087.1 31460390 7 165642810 165647129 Rousettus aegyptiacus 9407 CAG|GTATCCAGAA...TTTATCTTAATG/CTTTATCTTAAT...CCCAG|ATC 2 1 85.31

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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]);