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 = 5460292

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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
28028666 GT-AG 0 1.000000099473604e-05 114 rna-XM_010134590.1 5460292 1 17280 17393 Buceros rhinoceros 175835 CAG|GTAAGCAAGA...ACTGTATTATTT/AACTGTATTATT...TTCAG|GCT 0 1 4.646
28028667 GT-AG 0 0.0001702225917527 9154 rna-XM_010134590.1 5460292 2 17476 26629 Buceros rhinoceros 175835 GAG|GTATGTACTG...AACTTCTTTGCT/TACTGTTTTATG...TGTAG|TGG 1 1 10.168
28028668 GC-AG 0 1.000000099473604e-05 5430 rna-XM_010134590.1 5460292 3 27214 32643 Buceros rhinoceros 175835 AAG|GCAAGTTCTC...CAAACTCTACCC/CTGGGACTGAGC...TTTAG|GAG 0 1 49.495
28028669 GT-AG 0 0.0004153556169071 558 rna-XM_010134590.1 5460292 4 32800 33357 Buceros rhinoceros 175835 CTG|GTAAGCTTTC...TTTTTCTCAAAT/TTTTTTCTCAAA...TTAAG|GTC 0 1 60.0
28028670 GT-AG 0 1.3968209808147444e-05 4789 rna-XM_010134590.1 5460292 5 33403 38191 Buceros rhinoceros 175835 AAG|GTAGGCAGAT...AAGTACTTAACT/AAGTACTTAACT...AAAAG|GGA 0 1 63.03
28028671 GT-AG 0 1.000000099473604e-05 3059 rna-XM_010134590.1 5460292 6 38333 41391 Buceros rhinoceros 175835 AAG|GTCTGTATGA...CTTGTCTTTGTG/CAGAGACAGACT...TTCAG|GCT 0 1 72.525
28028672 GT-AG 0 1.000000099473604e-05 338 rna-XM_010134590.1 5460292 7 41428 41765 Buceros rhinoceros 175835 AAA|GTGAGTAGGA...TGTATCTTGTCC/ACATTTCTAATA...TCTAG|AGC 0 1 74.949
28028673 GT-AG 0 0.0064664495128599 8066 rna-XM_010134590.1 5460292 8 41970 50035 Buceros rhinoceros 175835 AAG|GTATGTCTGG...ACTTTCTTAATT/ACTTTCTTAATT...CTCAG|AAC 0 1 88.687

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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]);