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 = 26540815

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Suggested facets: dinucleotide_pair, 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
146967559 GT-AG 0 1.000000099473604e-05 544 rna-XM_039697169.1 26540815 2 13345139 13345682 Passer montanus 9160 CAG|GTATGGGGTG...CGTCCCTTGCTC/CTCCTTCTAATG...TGCAG|AGG 1 1 6.932
146967560 GC-AG 0 1.000000099473604e-05 271 rna-XM_039697169.1 26540815 3 13346283 13346553 Passer montanus 9160 TTG|GCAAGTGCTG...AATCTCTTGTCT/AACATGATAATC...TGAAG|CAG 1 1 16.787
146967561 GT-AG 0 1.000000099473604e-05 454 rna-XM_039697169.1 26540815 4 13346818 13347271 Passer montanus 9160 AAG|GTAGGATGCA...TTTTCCCTATTA/TCCCTATTAACT...CTCAG|GGG 1 1 21.124
146967562 GT-AG 0 1.000000099473604e-05 222 rna-XM_039697169.1 26540815 5 13348085 13348306 Passer montanus 9160 CTG|GTGGGTGTCC...GTTGCTCTATCT/GTCGTGCTGAAA...TGTAG|GAG 1 1 34.478
146967563 GT-AG 0 1.000000099473604e-05 643 rna-XM_039697169.1 26540815 6 13348485 13349127 Passer montanus 9160 CCG|GTAAGACCCC...GCTGCCTGACCG/TGCTGCCTGACC...TGCAG|GTA 2 1 37.401
146967564 GT-AG 0 1.000000099473604e-05 888 rna-XM_039697169.1 26540815 7 13352333 13353220 Passer montanus 9160 AAG|GTAAGAGCTC...TCATCCTGACCC/CATGGTCTCATC...CCCAG|TAT 0 1 90.046
146967565 GT-AG 0 1.000000099473604e-05 358 rna-XM_039697169.1 26540815 8 13353327 13353684 Passer montanus 9160 CGG|GTGAGTGCTG...ATCCCCTTCCCT/AGTGCCCCCATG...CACAG|GCC 1 1 91.787
146971267 GT-AG 0 1.000000099473604e-05 400 rna-XM_039697169.1 26540815 1 13344422 13344821 Passer montanus 9160 TGG|GTAAGGGGCG...CCTCGTTTGAAG/CCTCGTTTGAAG...TTCAG|ATT   0 2.283

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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]);