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 = 1565108

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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
8696208 GT-AG 0 1.000000099473604e-05 131 rna-XM_020229260.1 1565108 1 21540373 21540503 Ananas comosus 4615 AAG|GTTAGGAACT...TCTTCCTTTTCT/ATATGATTGATC...TGCAG|TAT 0 1 6.635
8696209 GT-AG 0 0.0379823624943453 114 rna-XM_020229260.1 1565108 2 21540171 21540284 Ananas comosus 4615 CAC|GTAGTCTTGA...TTTGTTTTATCT/GTTTGTTTTATC...TGTAG|AGG 1 1 8.979
8696210 GT-AG 0 1.000000099473604e-05 3604 rna-XM_020229260.1 1565108 3 21536388 21539991 Ananas comosus 4615 AAG|GTAATATTTA...TTCATTTTATAT/TCTCCTTTCATT...TGCAG|GTG 0 1 13.749
8696211 GT-AG 0 0.0032811171058718 5410 rna-XM_020229260.1 1565108 4 21530520 21535929 Ananas comosus 4615 ATT|GTATGTATAG...ATAAATTTAATA/AATATATTTATA...TGCAG|GTC 2 1 25.953
8696212 GT-AG 0 1.000000099473604e-05 780 rna-XM_020229260.1 1565108 5 21529199 21529978 Ananas comosus 4615 AAG|GTGAGGGGTT...AACATCTGAATA/AATAACATCATC...TGCAG|ATA 0 1 40.368
8696213 GT-AG 0 1.000000099473604e-05 141 rna-XM_020229260.1 1565108 6 21528878 21529018 Ananas comosus 4615 CTG|GTATAACGAT...GAAACTTCGAAA/CTCGCATTCAAA...ATCAG|GTG 0 1 45.164
8696214 GT-AG 0 0.0001884647355873 201 rna-XM_020229260.1 1565108 7 21527390 21527590 Ananas comosus 4615 CAA|GTAAGCCTCT...GTAATTTTACCT/CGTAATTTTACC...TGCAG|GTT 0 1 79.456
8696215 GT-AG 0 0.0001210897083037 116 rna-XM_020229260.1 1565108 8 21526855 21526970 Ananas comosus 4615 ATC|GTAAGTTTCA...TTGTGCTCGACA/TAGGAGTTCATT...CGTAG|GTC 2 1 90.621

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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]);