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 = 17265370

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Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
92256073 GT-AG 0 1.000000099473604e-05 798 rna-XM_021434627.1 17265370 1 2170325 2171122 Herrania umbratica 108875 ACG|GTTAGTTTAA...TTATCGTTATTG/AATCTGCTAACT...TGTAG|CAT 0 1 2.857
92256074 GT-AG 0 1.000000099473604e-05 76 rna-XM_021434627.1 17265370 2 2171267 2171342 Herrania umbratica 108875 GAT|GTGAGTTTAG...ATTCTCTTATTC/TTTTGTTTTATT...TGCAG|ACT 0 1 7.755
92256075 GT-AG 0 3.614659995606734e-05 406 rna-XM_021434627.1 17265370 3 2171445 2171850 Herrania umbratica 108875 AAG|GTATGAAATT...ATTTTTTTATTG/TATTTTTTTATT...TGCAG|ATA 0 1 11.224
92256076 GT-AG 0 3.6968820782473945e-05 440 rna-XM_021434627.1 17265370 4 2171980 2172419 Herrania umbratica 108875 AAA|GTTGGTTCTC...ATTCTTTTAATT/ATTCTTTTAATT...TGCAG|ATT 0 1 15.612
92256077 GT-AG 0 3.3100022410050105e-05 390 rna-XM_021434627.1 17265370 5 2172522 2172911 Herrania umbratica 108875 AAG|GTATGAAATT...ACAATTTTAATT/ACAATTTTAATT...TGCAG|ATA 0 1 19.082
92256078 GC-AG 0 1.000000099473604e-05 115 rna-XM_021434627.1 17265370 7 2173128 2173242 Herrania umbratica 108875 TTG|GCCTTGACAG...TGAATGTTGATC/TGAATGTTGATC...TACAG|TAT 0 1 21.735
92256079 GT-AG 0 0.0010824844049937 588 rna-XM_021434627.1 17265370 8 2173390 2173977 Herrania umbratica 108875 TCA|GTAAGTTTGC...TTTTCCTTGCAT/AATTAGCTGAGT...TTTAG|CAA 0 1 26.735
92256080 GT-AG 0 1.000000099473604e-05 130 rna-XM_021434627.1 17265370 9 2174042 2174171 Herrania umbratica 108875 CAG|GTGAGGGGTT...TTGCTTCTGATG/ATGGAATTTATT...TGCAG|CTA 1 1 28.912

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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]);