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 = 15319332

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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
82923808 GT-AG 0 1.8303302937179967e-05 52324 rna-gnl|WGS:VWPO|GLAPRA_R00042_mrna 15319332 1 2154178 2206501 Glareola pratincola 43316 CAG|GTACTGTCAG...ATCCCCATAACT/ATAACTGTGATT...TTCAG|AAT 0 1 6.095
82923809 GT-AG 0 0.0010736642954315 11051 rna-gnl|WGS:VWPO|GLAPRA_R00042_mrna 15319332 2 2206553 2217603 Glareola pratincola 43316 AAG|GTATGTACCC...TTTGCTTTAATT/TTTGCTTTAATT...TGCAG|GCT 0 1 9.333
82923810 GT-AG 0 1.000000099473604e-05 307 rna-gnl|WGS:VWPO|GLAPRA_R00042_mrna 15319332 3 2217684 2217990 Glareola pratincola 43316 CAG|GTAAAGTGTG...TGTTTTTTACTT/TTGTTTTTTACT...TGCAG|TTC 2 1 14.413
82923811 GT-AG 0 1.5326547271117975e-05 129 rna-gnl|WGS:VWPO|GLAPRA_R00042_mrna 15319332 4 2218463 2218591 Glareola pratincola 43316 GCT|GTGCATATCC...GCAGCCTGCATA/CCTTCTCCCACA...TGGAG|AAC 0 1 44.381
82923812 GT-AG 0 1.000000099473604e-05 1959 rna-gnl|WGS:VWPO|GLAPRA_R00042_mrna 15319332 5 2218837 2220795 Glareola pratincola 43316 CAG|GTTGGTTTAC...GCTTCCTTTTCT/TCTTTTCTAATG...TTCAG|GAT 2 1 59.937
82923813 GT-AG 0 1.000000099473604e-05 3781 rna-gnl|WGS:VWPO|GLAPRA_R00042_mrna 15319332 6 2220977 2224757 Glareola pratincola 43316 AAG|GTAGGCACGA...AACACCTAATCT/AAACACCTAATC...GCCAG|TGG 0 1 71.429
82923814 GT-AG 0 0.0096472312380668 2418 rna-gnl|WGS:VWPO|GLAPRA_R00042_mrna 15319332 7 2224906 2227323 Glareola pratincola 43316 CTG|GTATGTTGCT...TCCTTTTTAATT/TCCTTTTTAATT...TCCAG|GGA 1 1 80.825

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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]);