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 = 37928520

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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
209469037 GT-AG 0 1.000000099473604e-05 174 rna-XM_017581170.1 37928520 2 36053057 36053230 Vigna angularis 3914 CAG|GTAGAACTAG...TATAACTTGATT/CCATTACTAATT...CGAAG|ATT 1 1 8.492
209469038 GT-AG 0 1.000000099473604e-05 127 rna-XM_017581170.1 37928520 3 36055843 36055969 Vigna angularis 3914 AAG|GTAATGTTAG...TGGAATTTGACA/TGGAATTTGACA...TTCAG|GTT 0 1 55.094
209469039 GT-AG 0 1.000000099473604e-05 274 rna-XM_017581170.1 37928520 4 36056095 36056368 Vigna angularis 3914 CAG|GTAGTTGAAT...GTGACCTTAGCT/ATTTGTTTTATT...TGTAG|TCA 2 1 57.324
209469040 GT-AG 0 1.000000099473604e-05 740 rna-XM_017581170.1 37928520 5 36058136 36058875 Vigna angularis 3914 CAG|GTGATTGACA...GCCTTCTTATTT/AGGTTCTTTACT...GGCAG|TGT 2 1 88.849
209469041 GT-AG 0 1.7402883309892312e-05 84 rna-XM_017581170.1 37928520 6 36058925 36059008 Vigna angularis 3914 AAG|GTTTGTTCAT...AATATGTTAATT/TGTTAATTCATT...TTTAG|ATT 0 1 89.723
209469042 GT-AG 0 6.343991447770431e-05 301 rna-XM_017581170.1 37928520 7 36059251 36059551 Vigna angularis 3914 CAT|GTAAGATTTT...ATTTTCTTACTG/AATTTTCTTACT...TGTAG|CCT 2 1 94.041
209469043 GT-AG 0 0.0001478260607018 714 rna-XM_017581170.1 37928520 8 36059654 36060367 Vigna angularis 3914 GAG|GTACTATCAG...ATTTTTTTAACA/CTTTTGCTTATT...TGCAG|ATT 2 1 95.861
209482452 GT-AG 0 1.000000099473604e-05 1802 rna-XM_017581170.1 37928520 1 36050928 36052729 Vigna angularis 3914 ACT|GTGAGTTCAC...TTTCCTTTAATA/CCTTTAATAATT...TTCAG|GAT   0 5.049

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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]);