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 = 9887189

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Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
54167816 GT-AG 0 1.000000099473604e-05 1233 rna-XM_039369601.1 9887189 2 2540796 2542028 Crotalus tigris 88082 AAA|GTGAGACGGG...TTTTCCTTTTTA/ACAATCTTTATT...TCTAG|AAT 1 1 11.384
54167817 GT-AG 0 1.000000099473604e-05 6492 rna-XM_039369601.1 9887189 3 2534220 2540711 Crotalus tigris 88082 CAG|GTAGGTGATA...TGATCCTTACTT/ATGATCCTTACT...TCCAG|TGA 1 1 16.818
54167818 GT-AG 0 0.0078417168730103 1424 rna-XM_039369601.1 9887189 4 2532710 2534133 Crotalus tigris 88082 GAG|GTAGCTCTTT...TTTCTCTTGGTT/TTGGTTTTCAAT...ATCAG|AAT 0 1 22.38
54167819 GT-AG 0 1.000000099473604e-05 3193 rna-XM_039369601.1 9887189 5 2529321 2532513 Crotalus tigris 88082 AAC|GTGAGTAAAA...TTTTTCTTGTCT/CCATAAATCACT...ATTAG|TTG 1 1 35.058
54167820 GT-AG 0 0.0235087620050775 1156 rna-XM_039369601.1 9887189 6 2528082 2529237 Crotalus tigris 88082 CAG|GTAGCTTTTT...GACAGCTTAATC/GACAGCTTAATC...TACAG|GTT 0 1 40.427
54167821 GT-AG 0 1.000000099473604e-05 2797 rna-XM_039369601.1 9887189 7 2525020 2527816 Crotalus tigris 88082 TGA|GTAAGAGCCT...TGGTTCTAAATT/TTTCCTCTTACT...TTTAG|AGC 1 1 57.568
54167822 GT-AG 0 1.000000099473604e-05 5103 rna-XM_039369601.1 9887189 8 2519687 2524789 Crotalus tigris 88082 TCG|GTAAGTGCGA...GTTTTTTTATAC/TGTTTTTTTATA...CCTAG|GAA 0 1 72.445
54167920 GT-AG 0 0.0001168409211645 2261 rna-XM_039369601.1 9887189 1 2542322 2544582 Crotalus tigris 88082 AAT|GTGAGCTTTG...ATGGTCTTATTG/GATGGTCTTATT...TTCAG|TCA   0 7.05

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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]);