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 = 15088568

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Suggested facets: dinucleotide_pair, 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
81572943 GC-AG 0 1.000000099473604e-05 699 rna-XM_009806958.1 15088568 2 21396 22094 Gavia stellata 37040 AAG|GCAGGTCTCG...TAATTTTGAGCT/TTAATTTTGAGC...TACAG|GCC 2 1 22.893
81572944 GT-AG 0 1.000000099473604e-05 4855 rna-XM_009806958.1 15088568 3 22276 27130 Gavia stellata 37040 AAG|GTAAGGTGTT...TTTTCCTTCCTT/CTGCTGCTCACC...TGTAG|GTG 0 1 37.851
81572945 GT-AG 0 1.000000099473604e-05 1465 rna-XM_009806958.1 15088568 4 27293 28757 Gavia stellata 37040 AAC|GTGAGTAACG...CTGGCCTTGGCT/CACGCACTGAGT...TTCAG|GCT 0 1 51.24
81572946 GT-AG 0 1.000000099473604e-05 357 rna-XM_009806958.1 15088568 5 28855 29211 Gavia stellata 37040 AAG|GTAAGGCGCT...CTCTCTTTGCTT/AGTTCGCTGACT...ATCAG|TTG 1 1 59.256
81572947 GT-AG 0 1.000000099473604e-05 257 rna-XM_009806958.1 15088568 6 29381 29637 Gavia stellata 37040 CAG|GTGAGCGGCC...TTTGCTTTCTTC/CCCTAACTCATT...CCCAG|CCT 2 1 73.223
81572948 GT-AG 0 1.000000099473604e-05 846 rna-XM_009806958.1 15088568 7 29771 30616 Gavia stellata 37040 GAG|GTGGGTGTGC...TCGTGCTGGATG/GTGATGCTCAGA...ACCAG|CTG 0 1 84.215
81572949 GT-AG 0 1.000000099473604e-05 3784 rna-XM_009806958.1 15088568 1 17416 21199 Gavia stellata 37040 TGG|GTGAGCACGG...GTACCTGTGACA/GACAAATTCATG...CCTAG|GTG   0 9.091

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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]);