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 = 38062791

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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
210096129 GT-AG 0 4.727014601549869e-05 451 rna-XM_034828619.1 38062791 1 21531623 21532073 Vitis riparia 96939 GAG|GTACTTGGCT...AGTTTCTTATTC/TAGTTTCTTATT...TGCAG|AAT 0 1 21.723
210096130 GT-AG 0 1.000000099473604e-05 323 rna-XM_034828619.1 38062791 2 21533297 21533619 Vitis riparia 96939 AAG|GTACGTGCTA...TGTTTCTTTTCA/ATTTTATTGAAT...GACAG|GTT 2 1 59.894
210096131 GT-AG 0 1.000000099473604e-05 134 rna-XM_034828619.1 38062791 3 21533864 21533997 Vitis riparia 96939 CAG|GTTAAATCCT...ATGTCCTTACTC/AATGTCCTTACT...TTCAG|ACC 0 1 67.509
210096132 GT-AG 0 0.0005721972756426 1110 rna-XM_034828619.1 38062791 4 21534223 21535332 Vitis riparia 96939 TTG|GTATGTTTAT...AAGTTCTTCTGT/TTAGAAATAAGT...TCTAG|GTC 0 1 74.532
210096133 GT-AG 0 1.000000099473604e-05 585 rna-XM_034828619.1 38062791 5 21535507 21536091 Vitis riparia 96939 GCT|GTGAGTAATG...TTTCTCTTGATT/TTTCTCTTGATT...AACAG|GTA 0 1 79.963
210096134 GT-AG 0 1.000000099473604e-05 94 rna-XM_034828619.1 38062791 6 21536290 21536383 Vitis riparia 96939 GAG|GTAATATCCT...TTTTCCCTATTC/CATAAATTTATT...TGAAG|GTA 0 1 86.142
210096135 GT-AG 0 1.000000099473604e-05 157 rna-XM_034828619.1 38062791 7 21536498 21536654 Vitis riparia 96939 GAG|GTAGGTCCTT...TTCAGTTTGACT/TTCAGTTTGACT...TTCAG|GAC 0 1 89.7

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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]);