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)

7 rows where transcript_id = 2569241

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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
13842121 GT-AG 0 5.409876886583504e-05 1140 rna-XM_026077027.1 2569241 4 3368989 3370128 Apteryx rowi 308060 AAG|GTAGCTAAAT...AGTATGTTATTC/TAGTATGTTATT...TACAG|GTA 0 1 9.247
13842122 GT-AG 0 1.000000099473604e-05 12004 rna-XM_026077027.1 2569241 5 3356678 3368681 Apteryx rowi 308060 GAG|GTAAGGACCA...TTTCTCTTACTT/TTTTCTCTTACT...AATAG|AAA 1 1 16.878
13842123 GT-AG 0 3.294957682128201e-05 1443 rna-XM_026077027.1 2569241 6 3355122 3356564 Apteryx rowi 308060 GAA|GTAAGTATGA...TTGGTTTTGATT/TTGGTTTTGATT...TCCAG|GAT 0 1 19.687
13842124 GT-AG 0 1.000000099473604e-05 1981 rna-XM_026077027.1 2569241 7 3353048 3355028 Apteryx rowi 308060 CAG|GTTGGTAATA...TTGTTCTTTGTT/TCGATATTTAGT...TTAAG|GAC 0 1 21.999
13843937 GT-AG 0 0.0020132214345208 2308 rna-XM_026077027.1 2569241 1 3376878 3379185 Apteryx rowi 308060 TTG|GTATGTGTCA...TGATTCTTTTTT/TCCCCCTCTATT...TGAAG|CCT   0 1.243
13843938 GT-AG 0 1.000000099473604e-05 5113 rna-XM_026077027.1 2569241 2 3371641 3376753 Apteryx rowi 308060 GAG|GTAAGAAATG...TTGTCTTTAACG/ACATTTCTTATC...TACAG|CAG   0 4.325
13843939 GT-AG 0 1.000000099473604e-05 1307 rna-XM_026077027.1 2569241 3 3370175 3371481 Apteryx rowi 308060 GAG|GTAAATGCCT...AGGTTTTTAGAA/CAGGTTTTTAGA...TGTAG|GAA   0 8.277

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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]);