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 = 19668013

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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
105497762 GT-AG 0 0.0002568001301077 102 rna-KI688_001126 19668013 1 4008935 4009036 Linnemannia hyalina 64524 CAG|GTAACATTCA...TCGTTTTTTATA/TCGTTTTTTATA...TTTAG|TTC 1 1 3.257
105497763 GT-AG 0 1.000000099473604e-05 114 rna-KI688_001126 19668013 2 4007942 4008055 Linnemannia hyalina 64524 CTG|GTAAGGACCT...ATTTCTCTATAT/AATCTGCTCACT...AATAG|CTG 1 1 23.001
105497764 GT-AG 0 0.0001713836633498 662 rna-KI688_001126 19668013 3 4007060 4007721 Linnemannia hyalina 64524 GCA|GTGAATTGTG...TTTTCTTTGATC/TTTTCTTTGATC...CAAAG|ACC 2 1 27.942
105497765 GT-AG 0 1.98300616171086e-05 192 rna-KI688_001126 19668013 4 4006513 4006704 Linnemannia hyalina 64524 AAG|GTAACAGTTC...GGTCTCCTGACT/CTCATTCTCATG...AATAG|GCA 0 1 35.916
105497766 GT-AG 0 1.000000099473604e-05 398 rna-KI688_001126 19668013 5 4005965 4006362 Linnemannia hyalina 64524 AAG|GTGCGTCCTC...CCTTCTTTATAT/GCCTTCTTTATA...TGTAG|GAT 0 1 39.286
105497767 GT-AG 0 3.124874085643515e-05 313 rna-KI688_001126 19668013 6 4005472 4005784 Linnemannia hyalina 64524 GAG|GTAAGCCACC...GAAACCTTGACT/CCTTGACTGACC...GATAG|TAC 0 1 43.329
105497768 GT-AG 0 3.655127734209471e-05 88 rna-KI688_001126 19668013 7 4004763 4004850 Linnemannia hyalina 64524 CAA|GTAAGCATCA...TTGCACCTAACA/TTGCACCTAACA...TCTAG|AGA 0 1 57.278
105497769 GT-AG 0 0.0002254991054978 110 rna-KI688_001126 19668013 8 4004569 4004678 Linnemannia hyalina 64524 CTG|GTATGAATCT...TTGTCCTTTATT/TTGTCCTTTATT...GTTAG|ATG 0 1 59.164

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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]);