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 = 14514683

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
77700008 GT-AG 0 0.0002125451671098 2193 rna-XM_005228641.2 14514683 1 1347726 1349918 Falco peregrinus 8954 CAG|GTATGTTGTA...TCTGTCTGGAGA/AGCTGTGTAACA...TTCAG|TCT 1 1 5.477
77700009 GT-AG 0 0.0001963456744281 503 rna-XM_005228641.2 14514683 2 1350080 1350582 Falco peregrinus 8954 ACA|GTAAGTAACA...TTTTCTTTAATT/TTTTCTTTAATT...TCCAG|AAA 0 1 18.075
77700010 GT-AG 0 1.000000099473604e-05 91 rna-XM_005228641.2 14514683 3 1350608 1350698 Falco peregrinus 8954 ACG|GTACGATCAT...TCTACATGAACC/CTGACACTGAAT...TACAG|ACC 1 1 20.031
77700011 GT-AG 0 1.000000099473604e-05 898 rna-XM_005228641.2 14514683 4 1350813 1351710 Falco peregrinus 8954 AAG|GTCAGCTCTG...TGCTCTTTCTCT/GGAAAACTAAAT...TTCAG|CCG 1 1 28.951
77700012 GT-AG 0 1.000000099473604e-05 2461 rna-XM_005228641.2 14514683 5 1351852 1354312 Falco peregrinus 8954 AAG|GTAAGATACT...GGTTTTTTATTG/GGGTTTTTTATT...TCTAG|TGA 1 1 39.984
77700013 GT-AG 0 1.000000099473604e-05 523 rna-XM_005228641.2 14514683 6 1354420 1354942 Falco peregrinus 8954 CAA|GTGAGTCTTC...TTTGCTTTATGT/ATTTGCTTTATG...GGCAG|GCC 0 1 48.357
77700014 GT-AG 0 0.0008764726333322 211 rna-XM_005228641.2 14514683 7 1355064 1355274 Falco peregrinus 8954 TGG|GTATGTATCT...CTGCGTTTAACA/CTGCGTTTAACA...TTCAG|GTG 1 1 57.825

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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]);