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)

9 rows where transcript_id = 17394025

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Suggested facets: dinucleotide_pair, score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
92860620 GC-AG 0 1.000000099473604e-05 107 rna-XM_039206976.1 17394025 1 1178694 1178800 Hibiscus syriacus 106335 AAG|GCCTGTACTC...TATGTTTTGAAA/TATGTTTTGAAA...TATAG|AGT 0 1 16.304
92860621 GT-AG 0 1.000000099473604e-05 108 rna-XM_039206976.1 17394025 2 1178488 1178595 Hibiscus syriacus 106335 TAG|GTAAGCGGAA...AATATTGTAACT/AATCTTTTTATG...AGCAG|TCC 2 1 22.222
92860622 GT-AG 0 1.000000099473604e-05 95 rna-XM_039206976.1 17394025 3 1178242 1178336 Hibiscus syriacus 106335 GAG|GTTCGTGTTA...CATTGTTTAGCT/TATCATTTAATG...TTCAG|GTT 0 1 31.341
92860623 GT-AG 0 0.0006187319427597 107 rna-XM_039206976.1 17394025 4 1178072 1178178 Hibiscus syriacus 106335 GAG|GTTGCTTTAT...GCATCATTGATT/ATTGATTTAATT...GACAG|GCT 0 1 35.145
92860624 GT-AG 0 1.000000099473604e-05 320 rna-XM_039206976.1 17394025 5 1177590 1177909 Hibiscus syriacus 106335 CCA|GTTAGGTGAT...TGCATCTTCTCC/TCTGCATTCATG...TTCAG|TTG 0 1 44.928
92860625 GT-AG 0 0.0267964377124974 89 rna-XM_039206976.1 17394025 6 1177309 1177397 Hibiscus syriacus 106335 TTG|GTATGTTCTT...CATTTTTTATTT/TCATTTTTTATT...CACAG|TCC 0 1 56.522
92860626 GT-AG 0 1.000000099473604e-05 401 rna-XM_039206976.1 17394025 7 1176808 1177208 Hibiscus syriacus 106335 AAG|GTAGGTGCTT...TATTTCTTATTG/TTATTTCTTATT...TTCAG|GAT 1 1 62.56
92860627 GT-AG 0 1.813213126459364e-05 173 rna-XM_039206976.1 17394025 8 1176503 1176675 Hibiscus syriacus 106335 GAG|GTTCTTCCTC...CTCTTCTTAATG/GTAGTCCTGACT...TTTAG|CTC 1 1 70.531
92860628 TA-AC 0 1.000000099473604e-05 168 rna-XM_039206976.1 17394025 10 1176201 1176368 Hibiscus syriacus 106335 AGG|TATAAACCGG...ATGGATTTAACT/ATGGATTTAACT...TTCAC|AGG 2 1 78.563

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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]);