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 = 19419639

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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
103972610 GT-AG 0 1.000000099473604e-05 18184 rna-XM_017805649.1 19419639 1 8465273 8483456 Lepidothrix coronata 321398 CGG|GTGAGTACGG...TTTTTTTTATTC/TTTTTATTCACT...CATAG|AGC 2 1 6.595
103972611 GT-AG 0 1.000000099473604e-05 7750 rna-XM_017805649.1 19419639 2 8483606 8491355 Lepidothrix coronata 321398 GGG|GTAAGCTCAT...AGTTAATTAAAT/TATATAATTATT...TTTAG|TGA 1 1 17.276
103972612 GT-AG 0 1.000000099473604e-05 13751 rna-XM_017805649.1 19419639 3 8491424 8505174 Lepidothrix coronata 321398 ATG|GTAAGTTCTG...CAGACTTTGGTA/ACTTTGGTAAAC...TTTAG|GAA 0 1 22.151
103972613 GT-AG 0 1.000000099473604e-05 2767 rna-XM_017805649.1 19419639 4 8505396 8508162 Lepidothrix coronata 321398 AAG|GTGGGTTTTT...CTTTTTTTACTC/TCTTTTTTTACT...ACTAG|GCT 2 1 37.993
103972614 GT-AG 0 3.513860171872896e-05 1234 rna-XM_017805649.1 19419639 5 8508246 8509479 Lepidothrix coronata 321398 GCT|GTAGGTGGTA...GAATGTTTGATT/GAATGTTTGATT...TCCAG|ATG 1 1 43.943
103972615 GT-AG 0 1.000000099473604e-05 121 rna-XM_017805649.1 19419639 6 8509618 8509738 Lepidothrix coronata 321398 CTG|GTAAGGCAAA...TATTTTTTATTT/TTATTTTTCATT...TTTAG|GTG 1 1 53.835
103972616 GT-AG 0 1.000000099473604e-05 3088 rna-XM_017805649.1 19419639 7 8509892 8512979 Lepidothrix coronata 321398 TGG|GTAAGAATGT...TTTTTTTTCTCT/TACTTATACATT...AACAG|GCA 1 1 64.803
103972617 GT-AG 0 0.0021077733790135 4927 rna-XM_017805649.1 19419639 8 8513192 8518118 Lepidothrix coronata 321398 TCA|GTAAGTTTAG...TTTTCCTTTTTT/TAAAAATGCACA...TTAAG|AAA 0 1 80.0

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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]);