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 = 19749041

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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
105762393 GT-AG 0 1.000000099473604e-05 1891 rna-XM_007445649.1 19749041 1 758773 760663 Lipotes vexillifer 118797 CAG|GTGCGGGGCC...TGGGATTTGATT/TGGGATTTGATT...GCCAG|CAT 1 1 12.452
105762394 GT-AG 0 1.000000099473604e-05 1307 rna-XM_007445649.1 19749041 2 760818 762124 Lipotes vexillifer 118797 CGG|GTAGGAGCGC...AATACCTTAAAA/AAAGATCTTACT...TGCAG|TAC 2 1 27.203
105762395 GT-AG 0 0.0815349173709881 915 rna-XM_007445649.1 19749041 3 762238 763152 Lipotes vexillifer 118797 CAG|GTATATTTTA...TAATACTTAACT/ACTTAACTCATT...TCCAG|CCA 1 1 38.027
105762396 GT-AG 0 3.847741857935623e-05 1466 rna-XM_007445649.1 19749041 4 763266 764731 Lipotes vexillifer 118797 AGG|GTACGTATGC...GGTTTCTAAAAT/TGGTTTCTAAAA...TACAG|AAT 0 1 48.851
105762397 GT-AG 0 0.0001391374967697 678 rna-XM_007445649.1 19749041 5 764847 765524 Lipotes vexillifer 118797 TTG|GTAATTTGCC...TTTTTTTTAAAT/TTTTTTTTAAAT...TCTAG|GCA 1 1 59.866
105762398 GT-AG 0 1.000000099473604e-05 833 rna-XM_007445649.1 19749041 6 765601 766433 Lipotes vexillifer 118797 TGG|GTTAGTGTTT...CTGTCCTGAATG/CCTGTCCTGAAT...CAAAG|TCG 2 1 67.146
105762399 GT-AG 0 1.000000099473604e-05 719 rna-XM_007445649.1 19749041 7 766542 767260 Lipotes vexillifer 118797 AAG|GTGCGCCCTC...TATTCTGTGATA/AGTTAGTTTATT...ATCAG|CTA 2 1 77.49
105762400 GT-AG 0 0.0005314681778536 1411 rna-XM_007445649.1 19749041 8 767395 768805 Lipotes vexillifer 118797 ATG|GTAAGTTTTA...CTGTCTTTAACC/CTGTCTTTAACC...CCCAG|GTG 1 1 90.326

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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]);