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 = 12917252

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
68847371 GT-AG 0 1.000000099473604e-05 149080 rna-XM_009637589.2 12917252 1 943078 1092157 Egretta garzetta 188379 CAG|GTAGGGCGTT...GGTTTGTTAATC/ACCTTTCTCATC...TGCAG|GTG 2 1 14.72
68847372 GT-AG 0 1.000000099473604e-05 53365 rna-XM_009637589.2 12917252 2 1092391 1145755 Egretta garzetta 188379 AAG|GTAAGCGGCA...CTTCCTTTTGTT/GTCTGGGTAATG...CACAG|TTC 1 1 36.847
68847373 GT-AG 0 1.000000099473604e-05 82450 rna-XM_009637589.2 12917252 3 1145882 1228331 Egretta garzetta 188379 CAG|GTAAGGGACC...CAAATCTGAATG/CCAAATCTGAAT...ACCAG|GCA 1 1 48.813
68847374 GT-AG 0 1.000000099473604e-05 3859 rna-XM_009637589.2 12917252 4 1228467 1232325 Egretta garzetta 188379 ACT|GTGAGTACAT...TCCACCTGGAAG/TGTGAAGTGACT...TGCAG|ACC 1 1 61.633
68847375 GT-AG 0 1.000000099473604e-05 978 rna-XM_009637589.2 12917252 5 1232447 1233424 Egretta garzetta 188379 CAG|GTAAGACCTT...CACCTCTTCTTC/GCACTACACACC...CCTAG|GAT 2 1 73.124
68847376 GT-AG 0 7.077075437052267e-05 6065 rna-XM_009637589.2 12917252 6 1233574 1239638 Egretta garzetta 188379 ACA|GTAAGTATGG...TTGTCCTTTTCT/ATGTTGCTTATT...CTTAG|AAC 1 1 87.274
68847377 GT-AG 0 1.000000099473604e-05 18310 rna-XM_009637589.2 12917252 7 1239675 1257984 Egretta garzetta 188379 CAG|GTCAGTATAT...TTCTCTTTTTCT/CCGTGTGTAATC...TGCAG|GAC 1 1 90.693

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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]);