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 = 16807743

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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
89548216 GT-AG 0 1.000000099473604e-05 1731 rna-XM_009924785.1 16807743 2 53353 55083 Haliaeetus albicilla 8969 CAG|GTTAGTAACG...TCTGTCCTAACT/TCTGTCCTAACT...TTCAG|GCA 0 1 18.012
89548217 GT-AG 0 1.000000099473604e-05 902 rna-XM_009924785.1 16807743 3 52262 53163 Haliaeetus albicilla 8969 ATG|GTAAGAAAGA...TTGTCCTTTCCT/TCTGGTCTCATG...TGCAG|CCT 0 1 32.686
89548218 GT-AG 0 1.000000099473604e-05 1339 rna-XM_009924785.1 16807743 4 50783 52121 Haliaeetus albicilla 8969 CAG|GTTCAGTAGT...TATTCCTTGTTT/ATTTTGCTTATT...TCTAG|GCA 2 1 43.556
89548219 GT-AG 0 1.000000099473604e-05 114 rna-XM_009924785.1 16807743 5 50506 50619 Haliaeetus albicilla 8969 TAT|GTGAGTTATA...TGTTCCTTGCAT/ATATATCTTATG...TTTAG|ATT 0 1 56.211
89548220 GT-AG 0 1.000000099473604e-05 510 rna-XM_009924785.1 16807743 6 49909 50418 Haliaeetus albicilla 8969 AAT|GTGAGTAAAT...ATTTGCTTATTC/AATTTGCTTATT...CATAG|GTG 0 1 62.966
89548221 GT-AG 0 4.366796770372641e-05 388 rna-XM_009924785.1 16807743 7 49386 49773 Haliaeetus albicilla 8969 CAG|GTATTGGTGG...TACATTTTACTT/ATTATGTTTACA...AATAG|CTT 0 1 73.447
89548222 GT-AG 0 1.000000099473604e-05 750 rna-XM_009924785.1 16807743 8 48516 49265 Haliaeetus albicilla 8969 CAG|GTCAGTTTCT...GGATCCTTGATG/TGTATTATGATT...TGTAG|GCC 0 1 82.764
89548223 GT-AG 0 0.0001364137706139 3123 rna-XM_009924785.1 16807743 1 55296 58418 Haliaeetus albicilla 8969 GAG|GTAATCATGA...CAAGCTTTAATA/TGAAACCTCACT...TCCAG|GTG   0 8.23

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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]);