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 = 22173132

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
120103940 GT-AG 0 1.000000099473604e-05 217259 rna-XM_036380167.1 22173132 1 29319360 29536618 Molothrus ater 84834 TGC|GTAAGTAGCA...GAAGTCTTATGT/CTATATTTCATC...TACAG|CTG 1 1 8.37
120103941 GT-AG 0 1.000000099473604e-05 2174 rna-XM_036380167.1 22173132 2 29317033 29319206 Molothrus ater 84834 GAG|GTAGGTGCTC...ATGTTTTTAACA/TTCTTTCTCATC...AACAG|AAC 1 1 11.571
120103942 GT-AG 0 0.0002780674165241 8698 rna-XM_036380167.1 22173132 3 29308201 29316898 Molothrus ater 84834 CCA|GTAAGTCTTT...ATGTTTTTAATT/TTTTTTTTCACA...TATAG|TTT 0 1 14.375
120103943 GT-AG 0 1.000000099473604e-05 2159 rna-XM_036380167.1 22173132 4 29305979 29308137 Molothrus ater 84834 AAG|GTACTGGAAA...TGTGCCTGAGTG/GATGTATTCATT...TGCAG|TCT 0 1 15.694
120103944 GT-AG 0 1.000000099473604e-05 3208 rna-XM_036380167.1 22173132 5 29302578 29305785 Molothrus ater 84834 CTG|GTACAAATCT...ATTTGTTTACTA/AATTTGTTTACT...TGCAG|GAG 1 1 19.732
120103945 GT-AG 0 1.000000099473604e-05 1234 rna-XM_036380167.1 22173132 6 29301212 29302445 Molothrus ater 84834 TAG|GTGTAGTATA...CCAGCTTTCCAT/CTCCCACTCACC...CCTAG|ATT 1 1 22.494
120103946 GT-AG 0 1.000000099473604e-05 482 rna-XM_036380167.1 22173132 8 29297777 29298258 Molothrus ater 84834 AAG|GTCAGTTGGG...GGAGTCTGACCA/TGGAGTCTGACC...TTAAG|AGT 1 1 84.264
120103947 GT-AG 0 2.750582813134753e-05 713 rna-XM_036380167.1 22173132 9 29296937 29297649 Molothrus ater 84834 CAG|GTGACCAACC...TTCTCCTTTGTG/TAATGTATGAAA...TACAG|ATC 2 1 86.922

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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]);