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)

6 rows where transcript_id = 22173173

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Suggested facets: dinucleotide_pair, 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
120105006 GT-AG 0 1.000000099473604e-05 1301 rna-XM_036394437.1 22173173 2 95625291 95626591 Molothrus ater 84834 CCG|GTAAGGGAAG...CCAGCCTGGGCC/CCGGAGATCAAG...CAGAG|CTC 2 1 36.615
120105007 GC-AG 0 1.000000099473604e-05 1170 rna-XM_036394437.1 22173173 3 95627584 95628753 Molothrus ater 84834 CGA|GCAGCTCCAA...AATGTCTGCTCC/TCTGCTCCAAGT...ATGAG|CCC 1 1 62.448
120105008 GT-AG 0 1.000000099473604e-05 4812 rna-XM_036394437.1 22173173 4 95628758 95633569 Molothrus ater 84834 CCA|GTTGGTCCCC...CCAGCCTGGGCA/CAGAGATCGAGC...CAGAG|CTC 2 1 62.552
120105009 GT-AG 0 1.000000099473604e-05 8010 rna-XM_036394437.1 22173173 5 95634695 95642704 Molothrus ater 84834 CCG|GTAAGGGAAG...TGAACATCAATG/TCAATGCTGACA...TTTAG|CAG 2 1 91.849
120105010 GT-AG 0 0.0007292894095809 1146 rna-XM_036394437.1 22173173 6 95642819 95643964 Molothrus ater 84834 TGT|GTAAGTTTGC...CAGTGCTTAATT/CAGTGCTTAATT...TGCAG|GGA 2 1 94.818
120112066 GT-AG 0 1.000000099473604e-05 395 rna-XM_036394437.1 22173173 1 95623557 95623951 Molothrus ater 84834 CAG|GTGAGCGGCG...CTGTCCTTGTCC/GCAAATCCCATC...CCCAG|AGC   0 2.109

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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]);