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 = 4024490

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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
20804538 GT-AG 0 1.000000099473604e-05 46344 rna-XM_010303519.1 4024490 1 9091 55434 Balearica regulorum 925459 ATG|GTACGTGCAA...CTCTCTCTAATA/ATTTGATTCATG...TGTAG|CTA 0 1 8.174
20804539 GT-AG 0 1.000000099473604e-05 2417 rna-XM_010303519.1 4024490 2 55498 57914 Balearica regulorum 925459 AAG|GTGCAGATGC...TTGCTCTTTTCT/ATGCTGTTTACT...TACAG|ATC 0 1 13.896
20804540 GT-AG 0 1.000000099473604e-05 3528 rna-XM_010303519.1 4024490 3 58058 61585 Balearica regulorum 925459 CAT|GTGAGCCAAA...GTCTTTGTAATA/TATAAAATCACT...TTCAG|GAG 2 1 26.885
20804541 GT-AG 0 1.000000099473604e-05 4218 rna-XM_010303519.1 4024490 4 61661 65878 Balearica regulorum 925459 TAA|GTAAGTCAAG...TTATTTTTATGA/ATTATTTTTATG...AACAG|GTA 2 1 33.697
20804542 GT-AG 0 1.000000099473604e-05 11585 rna-XM_010303519.1 4024490 5 65982 77566 Balearica regulorum 925459 GAG|GTAAGCAATC...TGTATTTTATTT/ATGTATTTTATT...CACAG|GTC 0 1 43.052
20804543 GT-AG 0 1.000000099473604e-05 14089 rna-XM_010303519.1 4024490 6 77717 91805 Balearica regulorum 925459 CAG|GTAGGAAGCT...TTTTTTTTCTCT/TCTGTTTTCAAA...TCCAG|AGT 0 1 56.676
20804544 GT-AG 0 1.000000099473604e-05 3786 rna-XM_010303519.1 4024490 7 91867 95652 Balearica regulorum 925459 AAG|GTTGTTTACA...AATTCTTTGATA/AATTCTTTGATA...CCTAG|GGG 1 1 62.216
20804545 GT-AG 0 1.6446714519607575e-05 2530 rna-XM_010303519.1 4024490 8 95933 98462 Balearica regulorum 925459 TAA|GTAAGATTTG...GTTGCCTTTTTG/GACTATATGACC...TGCAG|CAA 2 1 87.648

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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]);