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 = 15319342

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Suggested facets: phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
82923868 GT-AG 0 3.661551845711841e-05 716 rna-gnl|WGS:VWPO|GLAPRA_R12994_mrna 15319342 1 512643 513358 Glareola pratincola 43316 CAG|GTACAGTTCT...TGTTTCTGATTT/TTGTTTCTGATT...TTCAG|CTT 1 1 10.619
82923869 GT-AG 0 1.0987704099280316e-05 704 rna-gnl|WGS:VWPO|GLAPRA_R12994_mrna 15319342 2 511740 512443 Glareola pratincola 43316 CAG|GTAGACCAAA...CTTTCTTTCAAT/CTTTCTTTCAAT...TGCAG|TTT 2 1 28.994
82923870 GT-AG 0 0.0005368094153303 724 rna-gnl|WGS:VWPO|GLAPRA_R12994_mrna 15319342 3 510906 511629 Glareola pratincola 43316 TCG|GTAAGTTACA...ATTTTCTTAACT/ATTTTCTTAACT...CTCAG|CTT 1 1 39.151
82923871 GT-AG 0 6.48378141794273e-05 558 rna-gnl|WGS:VWPO|GLAPRA_R12994_mrna 15319342 4 510211 510768 Glareola pratincola 43316 AGG|GTATGAGATA...ATATTCTTAAAT/TATATTCTTAAA...CACAG|GTT 0 1 51.801
82923872 GT-AG 0 0.0002751167371768 1073 rna-gnl|WGS:VWPO|GLAPRA_R12994_mrna 15319342 5 508991 510063 Glareola pratincola 43316 ATG|GTATGTATAA...TACATCTGAATA/AAAATACTCACT...TTCAG|AAC 0 1 65.374
82923873 GT-AG 0 1.000000099473604e-05 1273 rna-gnl|WGS:VWPO|GLAPRA_R12994_mrna 15319342 6 507646 508918 Glareola pratincola 43316 CAG|GTACTAGCAA...TCTTCCTGAATG/TTCTTGTTCATC...CTTAG|GAG 0 1 72.022
82923874 GT-AG 0 0.004178449438621 1155 rna-gnl|WGS:VWPO|GLAPRA_R12994_mrna 15319342 7 506419 507573 Glareola pratincola 43316 CAG|GTATATTTTG...ATTCCTGTACCA/TGGTCATTCATT...TCCAG|GCT 0 1 78.67

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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]);