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 = 23404103

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Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
127495121 GT-AG 0 5.020888469039403e-05 2753 rna-XM_024739626.1 23404103 2 1229477 1232229 Neophocaena asiaeorientalis 189058 ATG|GTATGGCTGT...TTTTCTTTCGTG/CTGTGTATAATC...CTCAG|GAG 1 1 30.033
127495122 GT-AG 0 1.000000099473604e-05 3945 rna-XM_024739626.1 23404103 3 1232353 1236297 Neophocaena asiaeorientalis 189058 CAG|GTACGGAGAT...CTCTCCTGAGTT/ACTCTCCTGAGT...CACAG|TTG 1 1 40.182
127495123 GT-AG 0 0.0001452053474809 11067 rna-XM_024739626.1 23404103 4 1236561 1247627 Neophocaena asiaeorientalis 189058 GAT|GTAAGTTGAT...TTGCTTTTAATG/TTGCTTTTAATG...GGTAG|CCA 0 1 61.881
127495124 GT-AG 0 1.000000099473604e-05 20102 rna-XM_024739626.1 23404103 5 1247854 1267955 Neophocaena asiaeorientalis 189058 AAG|GTTGGTCTGC...ATTTTCTTTGTT/CAATATTTCACA...TTCAG|TCT 1 1 80.528
127495125 GT-AG 0 1.000000099473604e-05 8471 rna-XM_024739626.1 23404103 6 1268076 1276546 Neophocaena asiaeorientalis 189058 CAG|GTATGAACCA...TGTTTCATGTTT/TTGTGTTTCATG...ACCAG|CAG 1 1 90.429
127495126 GT-AG 0 1.000000099473604e-05 3516 rna-XM_024739626.1 23404103 7 1276601 1280116 Neophocaena asiaeorientalis 189058 CAG|GTAAAACACA...TCTTCCTTAGAG/CTCTTCCTTAGA...TGTAG|GTC 1 1 94.884
127495157 GT-AG 0 1.908085003257885e-05 21785 rna-XM_024739626.1 23404103 1 1207392 1229176 Neophocaena asiaeorientalis 189058 TAG|GTAGGTTCTC...TTTTCTTTCGCT/CTTTCGCTAATT...ATTAG|GAG   0 6.188

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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]);