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 = 2121786

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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
11621040 GT-AG 0 1.000000099473604e-05 55 rna-XM_009822475.1 2121786 1 28314 28368 Aphanomyces astaci 112090 CAG|GTACAGTTCG...GGGTAGTTGATG/GGGTAGTTGATG...TGCAG|GGC 1 1 33.24
11621041 GT-AG 0 0.0328419331576608 57 rna-XM_009822475.1 2121786 2 28119 28175 Aphanomyces astaci 112090 TTG|GTACCTTGTC...AGACCATCGACT/ACCAGACACACA...TGTAG|GTC 1 1 36.463
11621042 GT-AG 0 0.0007093053022436 43 rna-XM_009822475.1 2121786 3 27608 27650 Aphanomyces astaci 112090 GCG|GTATGCAGAC...GTCTAGTTGACA/GTCTAGTTGACA...GGTAG|AGG 1 1 47.395
11621043 GT-AG 0 3.234217027709547e-05 72 rna-XM_009822475.1 2121786 4 27399 27470 Aphanomyces astaci 112090 GCA|GTACGTACTA...CATGGCTAAGTC/ACATGGCTAAGT...TATAG|GCC 0 1 50.596
11621044 GT-AG 0 0.338026829790919 64 rna-XM_009822475.1 2121786 5 27111 27174 Aphanomyces astaci 112090 CCA|GTATGCCTGC...ATGACCTTATAC/AATGACCTTATA...GGTAG|ACT 2 1 55.828
11621045 GT-AG 0 1.000000099473604e-05 54 rna-XM_009822475.1 2121786 6 26661 26714 Aphanomyces astaci 112090 ACG|GTGCGTCCCC...TCTACATTGGCA/GCTGTCTACATT...TGTAG|ACA 2 1 65.078
11621046 GT-AG 0 1.000000099473604e-05 56 rna-XM_009822475.1 2121786 7 25900 25955 Aphanomyces astaci 112090 CAA|GTGCGTACCT...AAATCGCTAACC/AAATCGCTAACC...TCTAG|ACA 2 1 81.546

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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]);