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 = 10378449

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Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
57022905 GT-AG 0 1.000000099473604e-05 940 rna-XM_025124668.1 10378449 2 22631759 22632698 Cynara cardunculus 4265 AAG|GTTCATAATT...ATGTCTGTATCT/GTATAATTAACT...TGTAG|TTC 0 1 7.635
57022906 GT-AG 0 0.0077574771160894 81 rna-XM_025124668.1 10378449 3 22633068 22633148 Cynara cardunculus 4265 AAT|GTATATGGCT...TTTTTTTTATAT/TTTTTTTTTATA...ATCAG|GTC 0 1 17.806
57022907 GT-AG 0 0.0772653321973063 5177 rna-XM_025124668.1 10378449 4 22633409 22638585 Cynara cardunculus 4265 CAG|GTATGCTCCT...ACTTCTTTAATA/ACTTCTTTAATA...TACAG|GTT 2 1 24.972
57022908 GT-AG 0 1.000000099473604e-05 226 rna-XM_025124668.1 10378449 5 22638728 22638953 Cynara cardunculus 4265 GAG|GTGTGTTCAG...AGGACTTTATAA/TTATAACTAAGT...TGCAG|GTA 0 1 28.886
57022909 GT-AG 0 1.000000099473604e-05 382 rna-XM_025124668.1 10378449 6 22639326 22639707 Cynara cardunculus 4265 GAG|GTATGAAGAT...GCCACCTTAAAT/ATAGCTTTTATC...TTCAG|GAT 0 1 39.14
57022910 GT-AG 0 1.000000099473604e-05 169 rna-XM_025124668.1 10378449 7 22639840 22640008 Cynara cardunculus 4265 CAG|GTACGATAAA...TCTGGTTTAACT/TCTGGTTTAACT...AATAG|GTT 0 1 42.778
57022911 GT-AG 0 1.000000099473604e-05 99 rna-XM_025124668.1 10378449 8 22640138 22640236 Cynara cardunculus 4265 CAG|GTAATAATAA...GATTTCTCAACT/GGATTTCTCAAC...CGTAG|TTT 0 1 46.334
57033674 GT-AG 0 6.183866008544618e-05 95 rna-XM_025124668.1 10378449 1 22631415 22631509 Cynara cardunculus 4265 CAG|GTAAACATCA...TCTTCTTTCAAT/AAATTGTTTATT...ATCAG|ATT   0 3.087

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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]);