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 = 38490444

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Suggested facets: 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
213116471 GT-AG 0 0.0019360831787737 535 rna-XM_020546462.3 38490444 2 115531850 115532384 Zea mays 4577 CAG|GTTGCTTCTT...TATTTCTTATAT/ATATTTCTTATA...AACAG|AGG 1 1 39.587
213116472 GT-AG 0 2.35193105684284e-05 89 rna-XM_020546462.3 38490444 3 115531572 115531660 Zea mays 4577 GAG|GTATGTGGGA...AGACTGTTAATG/ACACATTTGAAT...TTCAG|GTT 1 1 43.739
213116473 GT-AG 0 0.0058019831943633 106 rna-XM_020546462.3 38490444 4 115531370 115531475 Zea mays 4577 CAG|GTATATTTAC...GGTTATTTAGCT/TTTTTGGTTATT...TTCAG|CTG 1 1 45.848
213116474 GT-AG 0 0.0007907267520238 2291 rna-XM_020546462.3 38490444 5 115528910 115531200 Zea mays 4577 CTG|GTATGCCAAA...GTTGTCTTCTCA/TGTCTTCTCATT...CATAG|CAG 2 1 49.561
213116475 GT-AG 0 1.000000099473604e-05 80 rna-XM_020546462.3 38490444 6 115528703 115528782 Zea mays 4577 CTG|GTAATGCTAT...TCGATTTTGACC/TTATTACTAACT...GTTAG|ATG 0 1 52.351
213116476 GT-AG 0 0.0092450958154811 99 rna-XM_020546462.3 38490444 7 115526828 115526926 Zea mays 4577 TGG|GTATGTCTCT...ATCTTCTTGATG/TTGGTCTTCATT...TTCAG|GTT 0 1 91.366
213136486 GT-AG 0 0.0005885038879823 4191 rna-XM_020546462.3 38490444 1 115533934 115538124 Zea mays 4577 ACG|GTATGATTGG...CTATTCTTGCTG/GTATTACTGATA...TGCAG|ATG   0 8.128

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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]);