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 = 11121947

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Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
61577987 GT-AG 0 1.000000099473604e-05 58 rna-XM_047063053.1 11121947 1 3117314 3117371 Dermatophagoides farinae 6954 CAG|GTAAATGCGA...ATGGTGTTATCA/TTAAAATTGATT...ATTAG|TTT 0 1 15.613
61577988 GT-AG 0 5.746879654115725e-05 79 rna-XM_047063053.1 11121947 2 3116804 3116882 Dermatophagoides farinae 6954 AGC|GTAAGTACAA...TTTTTTTTGATG/TTTTTTTTGATG...CACAG|TTT 2 1 23.243
61577989 GT-AG 0 1.000000099473604e-05 77 rna-XM_047063053.1 11121947 3 3116384 3116460 Dermatophagoides farinae 6954 ATG|GTAAGAATTG...TTACCATTAATC/TTTTTTCTGATT...ATCAG|GCG 0 1 29.315
61577990 GT-AG 0 1.213539557339792e-05 64 rna-XM_047063053.1 11121947 4 3116117 3116180 Dermatophagoides farinae 6954 AAT|GTAAGTAACA...ATATTTTTATTC/TATATTTTTATT...TTTAG|ACC 2 1 32.908
61577991 AT-AA 0 0.000271067789268 356 rna-XM_047063053.1 11121947 5 3115165 3115520 Dermatophagoides farinae 6954 GCA|ATTAAATAAA...CATACATTGATT/CTGGTATTCATA...ATAAA|TAA 1 1 43.459
61577992 GT-AG 0 0.0005150962225234 51 rna-XM_047063053.1 11121947 6 3114559 3114609 Dermatophagoides farinae 6954 TCG|GTAAATATTA...TTATCTTTGATT/TTATCTTTGATT...TTTAG|TGC 1 1 53.284
61577993 GT-AG 0 1.000000099473604e-05 69 rna-XM_047063053.1 11121947 7 3113925 3113993 Dermatophagoides farinae 6954 ATG|GTTCGTCAAT...TTTTTTTTACTT/TTTTTTTTTACT...TCTAG|CAT 2 1 63.286

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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]);