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)

8 rows where transcript_id = 9887187

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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
54167796 GT-AG 0 1.000000099473604e-05 6336 rna-XM_039362213.1 9887187 1 962943 969278 Crotalus tigris 88082 TGG|GTGCGTGAGC...GCAATTTTAATT/GCAATTTTAATT...TTTAG|GAG 0 1 8.5
54167797 GT-AG 0 1.000000099473604e-05 8056 rna-XM_039362213.1 9887187 2 954846 962901 Crotalus tigris 88082 AAG|GTGAGATCAT...TCAACCTTGATC/AATGGTTTCAAC...TTCAG|ATC 2 1 10.778
54167798 GT-AG 0 1.000000099473604e-05 12109 rna-XM_039362213.1 9887187 3 942609 954717 Crotalus tigris 88082 GAT|GTGAGTAACT...TTGTGTTTGATG/CTGTTGTTCATC...TACAG|TGT 1 1 17.889
54167799 GT-AG 0 1.000000099473604e-05 3952 rna-XM_039362213.1 9887187 4 938590 942541 Crotalus tigris 88082 AAA|GTAAGTGCCA...TGGACTTTACCC/CATTTTCTCATT...TCCAG|TTT 2 1 21.611
54167800 GT-AG 0 1.000000099473604e-05 6495 rna-XM_039362213.1 9887187 5 931959 938453 Crotalus tigris 88082 AAG|GTGGGGCTTC...GCTTTTTTAATA/GCTTTTTTAATA...TGCAG|TGT 0 1 29.167
54167801 GT-AG 0 0.0003169443026354 785 rna-XM_039362213.1 9887187 6 931063 931847 Crotalus tigris 88082 CAG|GTATGTGGAC...TTGGCCTTAATT/TTGGCCTTAATT...TTCAG|AAC 0 1 35.333
54167802 GT-AG 0 1.000000099473604e-05 7135 rna-XM_039362213.1 9887187 7 923094 930228 Crotalus tigris 88082 CAG|GTAAATCAAC...AATTCCTTGTAT/ATTGAATTCATG...AGTAG|ATC 0 1 81.667
54167803 GT-AG 0 1.000000099473604e-05 1254 rna-XM_039362213.1 9887187 8 921591 922844 Crotalus tigris 88082 CAG|GTAGGACATC...TTCTTTTTAACT/TTCTTTTTAACT...TTCAG|AAT 0 1 95.5

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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]);