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 = 13851055

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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
73762643 GT-AG 0 0.0053277762656491 85 rna-XM_013002332.1 13851055 1 1780005 1780089 Erythranthe guttata 4155 CAG|GTATCAAGTC...TGGTACTTATTT/GTGGTACTTATT...CTTAG|GTC 2 1 29.406
73762644 GT-AG 0 0.0003964237524399 1997 rna-XM_013002332.1 13851055 2 1780705 1782701 Erythranthe guttata 4155 GGT|GTAAGTTCCA...CATTCTTTGAAT/TTTATATTGACC...TGCAG|GTT 2 1 40.962
73762645 GT-AG 0 0.0003889032955773 945 rna-XM_013002332.1 13851055 3 1783828 1784772 Erythranthe guttata 4155 AAG|GTACACATAT...GTTATCTGATTA/AGTTATCTGATT...ATCAG|CTA 0 1 62.12
73762646 GT-AG 0 1.000000099473604e-05 93 rna-XM_013002332.1 13851055 4 1785062 1785154 Erythranthe guttata 4155 AAG|GTTCAAAGCT...GTTATCTGAACA/CATGTTTTAAGT...TATAG|GTG 1 1 67.55
73762647 GC-AG 0 1.000000099473604e-05 273 rna-XM_013002332.1 13851055 5 1785280 1785552 Erythranthe guttata 4155 CAG|GCATGTTAAT...ATGCTCATGAAT/ACATTTCTCATT...TTCAG|GTT 0 1 69.899
73762648 GT-AG 0 0.0001670050237816 375 rna-XM_013002332.1 13851055 6 1786014 1786388 Erythranthe guttata 4155 CAG|GTATAATATA...ACTTCATTGATT/CATTTATTCATT...TGCAG|GGA 2 1 78.561
73762649 GT-AG 0 1.000000099473604e-05 1076 rna-XM_013002332.1 13851055 7 1786418 1787493 Erythranthe guttata 4155 AAG|GTAAATGCCT...TGATTCTTGACT/TGATTCTTGACT...TTCAG|GCT 1 1 79.106
73762650 GT-AG 0 1.000000099473604e-05 340 rna-XM_013002332.1 13851055 8 1788079 1788418 Erythranthe guttata 4155 GAG|GTAAGAATTT...AAAGTCTTAAAT/TCCGAGCTAATT...TGCAG|TTT 1 1 90.098

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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]);