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 = 15733625

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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
84902607 GT-AG 0 1.000000099473604e-05 286 rna-XM_017755037.1 15733625 1 35438275 35438560 Gossypium arboreum 29729 CAG|GTCTAATCAA...CCAATTTTAATG/CCAATTTTAATG...GATAG|GTG 0 1 5.966
84902608 GT-AG 0 1.000000099473604e-05 340 rna-XM_017755037.1 15733625 2 35437746 35438085 Gossypium arboreum 29729 GAG|GTAAAGTCAT...TTGTTTTTATAT/TTTGTTTTTATA...TTCAG|GTG 0 1 10.664
84902609 GT-AG 0 1.000000099473604e-05 116 rna-XM_017755037.1 15733625 3 35437537 35437652 Gossypium arboreum 29729 GAG|GTCAGTGATG...TAAGTTTTAACC/TAAGTTTTAACC...TGTAG|GTT 0 1 12.975
84902610 GT-AG 0 0.0008269436015606 87 rna-XM_017755037.1 15733625 4 35437267 35437353 Gossypium arboreum 29729 GAG|GTGGCCATTT...TTTTCGTTAGTC/ACTTTTCTCACG...CTTAG|GTC 0 1 17.524
84902611 GT-AG 0 1.0090704379998397e-05 122 rna-XM_017755037.1 15733625 5 35437042 35437163 Gossypium arboreum 29729 CTG|GTACTGCATT...TATTTTTTATTA/TTTTTATTAATT...TGCAG|CGG 1 1 20.085
84902612 GT-AG 0 3.728376105703765e-05 490 rna-XM_017755037.1 15733625 6 35436375 35436864 Gossypium arboreum 29729 AAG|GTACATCTGT...AATTCTATATTC/CCTCTGCTAATA...TCCAG|GCA 1 1 24.484
84902613 GT-AG 0 3.245969826288218e-05 352 rna-XM_017755037.1 15733625 7 35433600 35433951 Gossypium arboreum 29729 CCT|GTAAGTCACA...ATAGCCTTCATA/ATAGCCTTCATA...TTCAG|AAA 0 1 84.713
84902614 GT-AG 0 1.9262346808723164e-05 417 rna-XM_017755037.1 15733625 8 35432578 35432994 Gossypium arboreum 29729 AAG|GTAATTTGTC...GTTTTCTGAATC/CTGAATCTCATT...AACAG|AGG 2 1 99.751

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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]);