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)

6 rows where transcript_id = 17394019

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Suggested facets: dinucleotide_pair, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
92860571 GT-AG 0 0.0003275200692963 975 rna-XM_039208965.1 17394019 1 1438395 1439369 Hibiscus syriacus 106335 AAG|GTATGTGTTA...ATTTGTTTAATG/ATTTGTTTAATG...TGCAG|TGT 0 1 4.553
92860572 GT-AG 0 2.442635212330529e-05 113 rna-XM_039208965.1 17394019 2 1438156 1438268 Hibiscus syriacus 106335 AAG|GTCTGTTGAT...AATTTTTTATTG/AAATTTTTTATT...TATAG|GTT 0 1 11.382
92860573 GT-AG 0 5.328348675895658e-05 129 rna-XM_039208965.1 17394019 3 1437931 1438059 Hibiscus syriacus 106335 CCG|GTACTATACA...TAGCTGTTGACT/TTGATATTTATA...TGCAG|TTT 0 1 16.585
92860574 GT-AG 0 0.0027145582567218 141 rna-XM_039208965.1 17394019 4 1437631 1437771 Hibiscus syriacus 106335 AAT|GTAATCATGT...GGTTCTTTGATT/GGTTCTTTGATT...CTTAG|GAG 0 1 25.203
92860575 GT-AG 0 1.000000099473604e-05 159 rna-XM_039208965.1 17394019 5 1437291 1437449 Hibiscus syriacus 106335 AAG|GTTTAAATTT...TTATCTTTTATA/ATGGATCTGATC...CTCAG|CTG 1 1 35.014
92860576 AA-AT 0 0.0003941010111536 33 rna-XM_039208965.1 17394019 6 1436755 1436787 Hibiscus syriacus 106335 GGA|AATTTAGAAA...AAACTAGTGGCA/ACTAGTGGCAAT...AAGAT|AAA 0 1 62.276

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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]);