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 = 11121909

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Suggested facets: length, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
61577677 GT-AG 0 3.626847570943904e-05 65 rna-XM_047063325.1 11121909 2 13677058 13677122 Dermatophagoides farinae 6954 TTG|GTAATTATAA...TTCATCTTATCA/GTTATTTTTATT...AATAG|ATC 1 1 4.601
61577678 GT-AG 0 0.0133378404872552 75 rna-XM_047063325.1 11121909 3 13677298 13677372 Dermatophagoides farinae 6954 TCA|GTATGTATAG...TATTTCTTTGTT/CTTTGTTTCACC...AATAG|TTC 2 1 7.026
61577679 GT-AG 0 0.1342792688636012 60 rna-XM_047063325.1 11121909 4 13677734 13677793 Dermatophagoides farinae 6954 CAA|GTATGTTTTT...TAATTTTTATTA/TTAATTTTTATT...TATAG|CTT 0 1 12.029
61577680 GT-AG 0 5.543234086938703e-05 60 rna-XM_047063325.1 11121909 5 13678363 13678422 Dermatophagoides farinae 6954 AGG|GTAATGTTTC...CTATTTTTGATT/CTATTTTTGATT...AACAG|TGA 2 1 19.914
61577681 GT-AG 0 0.0053553303471584 59 rna-XM_047063325.1 11121909 6 13678760 13678818 Dermatophagoides farinae 6954 TTG|GTATGTTACA...TTATCTCTAATT/TTATCTCTAATT...AATAG|TTT 0 1 24.584
61577682 GT-AG 0 0.0007143472791682 100 rna-XM_047063325.1 11121909 7 13679104 13679203 Dermatophagoides farinae 6954 GAG|GTTTGTTTTT...TCTCCCTTCATC/TCTATATTTATA...GACAG|TTA 0 1 28.534
61577683 GT-AG 0 0.0045683031011247 62 rna-XM_047063325.1 11121909 8 13682415 13682476 Dermatophagoides farinae 6954 CTG|GTTTGTTTTT...ACTTTTTTAATT/ACTTTTTTAATT...AACAG|AAT 1 1 73.032
61584106 GT-AG 0 1.000000099473604e-05 474 rna-XM_047063325.1 11121909 1 13676149 13676622 Dermatophagoides farinae 6954 CAA|GTGAGTAAAA...ATTTTCTCAATA/AATTTTCTCAAT...TACAG|ATT   0 2.217

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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]);