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 = 7738669

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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
40790656 GT-AG 0 1.3749687014335742e-05 78 rna-XM_009884662.1 7738669 4 136286 136363 Charadrius vociferus 50402 AAT|GTGTTAATCA...CTGCCATTATCC/CCATTATCCACT...CCCAG|GTT 0 1 40.957
40790657 GT-AG 0 1.000000099473604e-05 489 rna-XM_009884662.1 7738669 5 132412 132900 Charadrius vociferus 50402 GAA|GTGGGAAAAC...CTTCCTTTAAAG/CTTCCTTTAAAG...CTCAG|ACC 1 1 80.969
40790658 GT-AG 0 0.0001048031312641 438 rna-XM_009884662.1 7738669 6 131695 132132 Charadrius vociferus 50402 CGG|GTACCAGGAG...ATGTCCTGATTC/CTGATTCTGACA...CGCAG|GCA 1 1 84.267
40790659 GT-AG 0 1.000000099473604e-05 2219 rna-XM_009884662.1 7738669 7 128534 130752 Charadrius vociferus 50402 CCG|GTAAGAAATT...TTTTCTTTATTC/GTTTTCTTTATT...CAAAG|CTT 1 1 95.402
40790660 GT-AG 0 1.000000099473604e-05 952 rna-XM_009884662.1 7738669 8 127349 128300 Charadrius vociferus 50402 CAG|GTAGGTCATG...TTGTTCTCAGAC/GTTGTTCTCAGA...CCCAG|GTG 0 1 98.156
40790779 GT-AG 0 1.000000099473604e-05 47649 rna-XM_009884662.1 7738669 1 142277 189925 Charadrius vociferus 50402 AAG|GTCAGCTTTT...AATCCCTTGCCT/TCCTGTCTAATC...CCCAG|GCC   0 1.147
40790780 GT-AG 0 1.000000099473604e-05 672 rna-XM_009884662.1 7738669 2 141522 142193 Charadrius vociferus 50402 GAG|GTAAGGACCA...ACCTTTTTGACT/ACCTTTTTGACT...AACAG|GTC   0 2.128
40790781 GT-AG 0 1.000000099473604e-05 1723 rna-XM_009884662.1 7738669 3 139658 141380 Charadrius vociferus 50402 GAG|GTGAGTGTGA...TGACCTTTATTT/CCCTGTTTGACC...ATTAG|GTC   0 3.794

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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]);