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 = 24462889

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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
133657945 GT-AG 0 1.000000099473604e-05 20925 rna-XM_004391476.2 24462889 1 1957520 1978444 Odobenus rosmarus 9707 GGG|GTAAGAAAGC...TGGTTCTCTCCT/AGAAGAGTCACC...CCTAG|GTG 2 1 11.981
133657946 GT-AG 0 1.3673476244613564e-05 3623 rna-XM_004391476.2 24462889 2 1953774 1957396 Odobenus rosmarus 9707 GAG|GTAGGTTGCT...ATAACCTTAAGT/AAGATATTCATT...TTCAG|AGC 2 1 26.572
133657947 GT-AG 0 1.000000099473604e-05 11793 rna-XM_004391476.2 24462889 3 1941847 1953639 Odobenus rosmarus 9707 CAG|GTAAGCAATG...TGTTCTCTGATG/TGTTCTCTGATG...CTCAG|GCA 1 1 42.467
133657948 GT-AG 0 1.000000099473604e-05 5254 rna-XM_004391476.2 24462889 4 1936462 1941715 Odobenus rosmarus 9707 TCT|GTAAGTGGCC...GTGCTTTTCTTT/CTGGGCTTCACT...TTCAG|CTG 0 1 58.007
133657949 GT-AG 0 1.000000099473604e-05 1269 rna-XM_004391476.2 24462889 5 1935145 1936413 Odobenus rosmarus 9707 AAG|GTAAGAAAGC...CACGTTTTAATT/CACGTTTTAATT...CTCAG|ACC 0 1 63.701
133657950 GT-AG 0 1.000000099473604e-05 1220 rna-XM_004391476.2 24462889 6 1933862 1935081 Odobenus rosmarus 9707 ATG|GTGAGAAACA...GTTGCCTTTTTT/GTTTTTGTGATG...TAAAG|TCA 0 1 71.174
133657951 GT-AG 0 1.7032821800920943e-05 2351 rna-XM_004391476.2 24462889 7 1931425 1933775 Odobenus rosmarus 9707 TTG|GTAAGTTGTT...ACTATCTTAAGT/AATATATTCAAC...CTCAG|CTT 2 1 81.376
133657952 GT-AG 0 1.000000099473604e-05 1263 rna-XM_004391476.2 24462889 8 1930074 1931336 Odobenus rosmarus 9707 CTG|GTGAGTTGTA...ATTATCTTAAAA/AAATTGCTCAAT...TACAG|TCT 0 1 91.815

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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]);