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 = 34828574

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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
196137423 GT-AG 0 0.0002149521659968 143 rna-XM_025011989.1 34828574 2 20156 20298 Temnothorax curvispinosus 300111 AAA|GTAAACACTG...ATAATTTTATTA/AATAATTTTATT...TGCAG|AAG 1 1 15.932
196137424 GT-AG 0 1.8727637328731516e-05 219 rna-XM_025011989.1 34828574 3 19587 19805 Temnothorax curvispinosus 300111 AAT|GTAGATATCA...AATTGTTTGCTA/AGCCAATTGAGT...TACAG|AAC 0 1 30.491
196137425 GT-AG 0 1.000000099473604e-05 422 rna-XM_025011989.1 34828574 4 18816 19237 Temnothorax curvispinosus 300111 GCA|GTAAGTGCGC...ATAACTGTAATT/TTGTATATAACT...CCTAG|AGG 1 1 45.008
196137426 GT-AG 0 2.112268355638139e-05 158 rna-XM_025011989.1 34828574 5 18490 18647 Temnothorax curvispinosus 300111 CGA|GTAAGTATTA...GAGTCCATGAAT/GAATGAATTATT...TGCAG|GCG 1 1 51.997
196137427 GT-AG 0 1.000000099473604e-05 71 rna-XM_025011989.1 34828574 6 18251 18321 Temnothorax curvispinosus 300111 CAG|GTGCGTCAAA...AAAGTCTCGAAT/AAGTCTCGAATT...TCCAG|ACG 1 1 58.985
196137454 GT-AG 0 0.0006365573574975 1485 rna-XM_025011989.1 34828574 1 20519 22003 Temnothorax curvispinosus 300111 AAA|GTATGTAAAT...ATATCTTTGTTT/ATAGATATTATA...TTTAG|ATT   0 9.027

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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]);