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 = 26701863

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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
148094988 GT-AG 0 0.0002133530307958 18165 rna-XM_009477985.1 26701863 1 2711 20875 Pelecanus crispus 36300 AAG|GTATTACTGT...TTTTTCTTCTTT/GTATCTCTGAAG...GACAG|ACT 0 1 12.007
148094989 GT-AG 0 1.000000099473604e-05 4593 rna-XM_009477985.1 26701863 2 21036 25628 Pelecanus crispus 36300 CAG|GTATGTAGAT...TTTGTTTTTCTA/TATATAATGACT...TTCAG|TGG 1 1 25.729
148094990 GT-AG 0 0.0016378754011292 24932 rna-XM_009477985.1 26701863 3 25741 50672 Pelecanus crispus 36300 GAA|GTAAGCTTAT...TTTTCCTTTTTT/AATTCTATGATT...TCCAG|GCA 2 1 35.334
148094991 GT-AG 0 1.000000099473604e-05 18576 rna-XM_009477985.1 26701863 4 50763 69338 Pelecanus crispus 36300 CGG|GTAAGACACA...TAAGTTTTAGTG/TTAGTGTTCATG...CCCAG|GTC 2 1 43.053
148094992 GT-AG 0 1.000000099473604e-05 649 rna-XM_009477985.1 26701863 5 69470 70118 Pelecanus crispus 36300 TAG|GTCAGTACAA...ATTTCATTAAAT/AAGTATTTCATT...TCCAG|ACA 1 1 54.288
148094993 GT-AG 0 1.000000099473604e-05 4121 rna-XM_009477985.1 26701863 6 70313 74433 Pelecanus crispus 36300 CAG|GTAAGAAAAA...ACTGTTTTAATA/ACTGTTTTAATA...TCCAG|GTT 0 1 70.926
148094994 GT-AG 0 1.000000099473604e-05 702 rna-XM_009477985.1 26701863 7 74512 75213 Pelecanus crispus 36300 ATG|GTAAGTGTTC...GTACTTTTGCCA/CCAGTTTCCACT...CCTAG|GTT 0 1 77.616
148094995 GT-AG 0 0.0001983053635901 13886 rna-XM_009477985.1 26701863 8 75363 89248 Pelecanus crispus 36300 AGG|GTATGTCACC...GTCATTTTAAAT/TCTTGGTTTACT...TGTAG|GTG 2 1 90.395

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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]);