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 = 8980488

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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
48347971 GT-AG 0 0.0014836680452994 503 rna-XM_010210144.1 8980488 1 44580 45082 Colius striatus 57412 CAT|GTATGAATGC...TGGTTCTTATTT/GTGGTTCTTATT...TACAG|TAT 0 1 16.776
48347972 GT-AG 0 4.3356826642048056e-05 214 rna-XM_010210144.1 8980488 2 44231 44444 Colius striatus 57412 CAG|GTCTGTATTA...TACTTCTTGTCT/TTTGCATTCAGG...TTCAG|GCA 0 1 29.428
48347973 GT-AG 0 0.0002461738877551 95 rna-XM_010210144.1 8980488 3 44010 44104 Colius striatus 57412 AAG|GTATTTCCTA...AATTTCTTTTTT/ATTTGTCTAATT...TGTAG|GCC 0 1 41.237
48347974 GT-AG 0 1.000000099473604e-05 612 rna-XM_010210144.1 8980488 4 43314 43925 Colius striatus 57412 GAG|GTAAGGAGGG...TTCTTTTTCATT/TTCTTTTTCATT...TACAG|GTT 0 1 49.11
48347975 GT-AG 0 1.000000099473604e-05 506 rna-XM_010210144.1 8980488 5 42751 43256 Colius striatus 57412 AAG|GTTAGCGTGG...GTTTTTTTATAA/TTTATAATCATT...TGAAG|ACG 0 1 54.452
48347976 GT-AG 0 1.000000099473604e-05 123 rna-XM_010210144.1 8980488 6 42457 42579 Colius striatus 57412 CAG|GTCAGCTGAA...GTCCTCTTCTAT/ATCTGTCTAAAG...CGTAG|ATT 0 1 70.478
48347977 GT-AG 0 1.000000099473604e-05 126 rna-XM_010210144.1 8980488 7 42253 42378 Colius striatus 57412 AAG|GTAAAGTTTA...ACCTTTTTATCG/TGATACCTGACC...TTTAG|GCA 0 1 77.788
48347978 GT-AG 0 0.0247014285737248 1589 rna-XM_010210144.1 8980488 8 40570 42158 Colius striatus 57412 AAG|GTAACCATTT...GTATTTTTACTA/TGTATTTTTACT...TGTAG|CCT 1 1 86.598

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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]);