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 = 11478675

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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
63112745 GT-AG 0 1.000000099473604e-05 75 rna-DGYR_LOCUS591 11478675 1 2250914 2250988 Dimorphilus gyrociliatus 2664684 CTG|GTAAGTCTTT...TCACCATTGATG/CACATATTCACC...TCCAG|ACA 1 1 1.602
63112746 GT-AG 0 1.000000099473604e-05 276 rna-DGYR_LOCUS591 11478675 2 2250497 2250772 Dimorphilus gyrociliatus 2664684 AAG|GTGAACCAAT...AATTCTTTATAT/TATTTATTTATT...TTTAG|GGG 1 1 4.974
63112747 GT-AG 0 1.000000099473604e-05 56 rna-DGYR_LOCUS591 11478675 3 2250152 2250207 Dimorphilus gyrociliatus 2664684 AAG|GTAATTGAGA...AACTCTTTGGTT/CATAAATTGATT...CTTAG|ATG 2 1 11.884
63112748 GT-AG 0 1.1625432791238312e-05 54 rna-DGYR_LOCUS591 11478675 4 2247938 2247991 Dimorphilus gyrociliatus 2664684 CCG|GTAAGTTATA...ATCTTGTTAAAT/ATCTTGTTAAAT...TTTAG|ATT 2 1 63.534
63112749 GT-AG 0 0.0005239619386296 63 rna-DGYR_LOCUS591 11478675 5 2247298 2247360 Dimorphilus gyrociliatus 2664684 CAG|GTATTTATAT...GATACGTTATTC/ATAAGTTTCAAA...CATAG|ATT 0 1 77.331
63112750 GT-AG 0 1.000000099473604e-05 125 rna-DGYR_LOCUS591 11478675 6 2246749 2246873 Dimorphilus gyrociliatus 2664684 AAG|GTAACAGCCT...CTATTTTTATTC/TCTATTTTTATT...TTAAG|GCC 1 1 87.47
63112751 GT-AG 0 1.4058743036677556e-05 176 rna-DGYR_LOCUS591 11478675 7 2246411 2246586 Dimorphilus gyrociliatus 2664684 GAG|GTATTAAAAA...TATTTCTAATCG/TTATTTCTAATC...ATTAG|GTA 1 1 91.344
63112752 GT-AG 0 0.0017737508569298 292 rna-DGYR_LOCUS591 11478675 8 2245951 2246242 Dimorphilus gyrociliatus 2664684 CTG|GTATGTTGCT...ATGTTTTTCACT/ATGTTTTTCACT...TACAG|GCA 1 1 95.361

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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]);