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 = 30057326

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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
168293297 GT-AG 0 1.000000099473604e-05 3247 rna-XM_007419824.3 30057326 1 1390170 1393416 Python bivittatus 176946 ACG|GTGAGTTGTC...GTTTGTGTACTG/TGTTTGTGTACT...TTCAG|TTT 0 1 5.437
168293298 GT-AG 0 1.000000099473604e-05 850 rna-XM_007419824.3 30057326 2 1389217 1390066 Python bivittatus 176946 CAG|GTGAGTTTGG...ATTGCATTGATC/ATTGCATTGATC...CCTAG|ATA 1 1 13.554
168293299 GT-AG 0 0.0018986981316483 586 rna-XM_007419824.3 30057326 3 1388549 1389134 Python bivittatus 176946 CCG|GTATGCCCCA...GATTTTTCAATA/AGATTTTTCAAT...TTTAG|GGA 2 1 20.016
168293300 GT-AG 0 1.000000099473604e-05 882 rna-XM_007419824.3 30057326 4 1387546 1388427 Python bivittatus 176946 ATG|GTGAGTAGTT...AGTGTTTTATAT/CAGTGTTTTATA...TTCAG|ATG 0 1 29.551
168293301 GT-AG 0 1.000000099473604e-05 732 rna-XM_007419824.3 30057326 5 1386685 1387416 Python bivittatus 176946 ATT|GTAAGACTTC...CATTCTTTCCCT/TTTTGGTTCACA...TACAG|GAC 0 1 39.716
168293302 GT-AG 0 1.3868504436411709e-05 636 rna-XM_007419824.3 30057326 6 1385987 1386622 Python bivittatus 176946 ACG|GTAGGTGTTT...ATGTTCTTGAGT/ATGTTCTTGAGT...TACAG|TGT 2 1 44.602
168293303 GT-AG 0 1.000000099473604e-05 1491 rna-XM_007419824.3 30057326 7 1384378 1385868 Python bivittatus 176946 AAG|GTAGGAACCA...TTTCTCTTTTTT/CAGTGCATAATC...TACAG|CTG 0 1 53.901

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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]);