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 = 34091280

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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
190849721 GT-AG 0 1.3278568309517678e-05 7647 rna-XM_013247501.1 34091280 2 1494713 1502359 Stomoxys calcitrans 35570 CAG|GTAGGTGTGA...GATGCCTTAATT/CTTAATTTTATC...TACAG|TAT 2 1 20.892
190849722 GT-AG 0 2.267817782718897e-05 148 rna-XM_013247501.1 34091280 3 1494292 1494439 Stomoxys calcitrans 35570 TAG|GTAAGTTGAA...TATTCTTTATTT/TTATTCTTTATT...TTTAG|ATA 2 1 40.227
190849723 GT-AG 0 0.0002658348641573 116 rna-XM_013247501.1 34091280 4 1494076 1494191 Stomoxys calcitrans 35570 CAG|GTATGTGTGT...TTGCTTTTATTT/TTTGCTTTTATT...TCTAG|GCA 0 1 47.309
190849724 GT-AG 0 1.000000099473604e-05 3607 rna-XM_013247501.1 34091280 5 1490255 1493861 Stomoxys calcitrans 35570 TTG|GTAAGTTGGC...TTTTTTTTTCCT/CTATGTTTCATG...TTCAG|AAC 1 1 62.465
190849725 GT-AG 0 1.000000099473604e-05 1316 rna-XM_013247501.1 34091280 6 1488673 1489988 Stomoxys calcitrans 35570 ACG|GTAAGTGATA...TTACCTTTATTA/ATATTTTTCACC...TCCAG|TCT 0 1 81.303
190849726 GT-AG 0 1.000000099473604e-05 2808 rna-XM_013247501.1 34091280 7 1485644 1488451 Stomoxys calcitrans 35570 AAA|GTAAGTACAC...TTCCCCTTTGTT/TGTTTTTTCATT...TTCAG|TTG 2 1 96.955
190849795 GT-AG 0 1.000000099473604e-05 5478 rna-XM_013247501.1 34091280 1 1503106 1508583 Stomoxys calcitrans 35570 AAA|GTAAAAACAA...AGTGTTTCAATT/AAGTGTTTCAAT...TGCAG|TAA   0 10.34

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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]);