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 = 22370870

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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
121406064 GT-AG 0 1.000000099473604e-05 378 rna-XM_024165342.1 22370870 1 49217 49594 Morus notabilis 981085 GAG|GTAATACTTC...TTTTTCTTTCTA/GGTTGTTTGAGT...AACAG|TGG 0 1 8.8
121406065 GT-AG 0 1.6604228107215275e-05 128 rna-XM_024165342.1 22370870 2 49710 49837 Morus notabilis 981085 CTG|GTAATTTCAT...AACATTTTGATC/ATTTTGATCACT...GGCAG|GTT 1 1 16.467
121406066 GT-AG 0 7.479759611925245e-05 349 rna-XM_024165342.1 22370870 3 49919 50267 Morus notabilis 981085 GAG|GTACGTCTTT...GTCTCCATATTA/TAGTGATTAACG...TACAG|CAA 1 1 21.867
121406067 GT-AG 0 0.0017402246011867 107 rna-XM_024165342.1 22370870 4 50357 50463 Morus notabilis 981085 GAG|GTATGCGCAA...TTTTCTTTATTG/CTTTTCTTTATT...TTTAG|CAA 0 1 27.8
121406068 GT-AG 0 0.0165044949139082 126 rna-XM_024165342.1 22370870 5 50556 50681 Morus notabilis 981085 AAT|GTATGCATAT...TTTGTTATGATG/GATCATTTCATA...TGCAG|TTG 2 1 33.933
121406069 GT-AG 0 1.8633235840141283e-05 691 rna-XM_024165342.1 22370870 6 50761 51451 Morus notabilis 981085 AAG|GTATAAGGGA...CATCCTTTATCC/TAACTGCTGATT...AACAG|GAT 0 1 39.2
121406070 GT-AG 0 0.020344206522632 756 rna-XM_024165342.1 22370870 7 51555 52310 Morus notabilis 981085 GCA|GTAATTTTCC...CATTTCTTGATG/TTTCTACTAATC...ATCAG|AAT 1 1 46.067
121406071 GT-AG 0 0.0004077872477298 722 rna-XM_024165342.1 22370870 8 52415 53136 Morus notabilis 981085 GAT|GTAGGTTGTT...TTTTTCTTCTTT/CCTAGTGTAACC...TTCAG|GTT 0 1 53.0

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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]);