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)

7 rows where transcript_id = 94417

✎ View and edit SQL

This data as json, CSV (advanced)

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
497987 GT-AG 0 1.000000099473604e-05 1703 rna-XM_009084516.1 94417 1 7986 9688 Acanthisitta chloris 57068 AGG|GTAAGGAAAT...GCAAGCTTGACG/GACAGTTTAATG...TACAG|GCA 2 1 4.543
497988 GT-AG 0 1.000000099473604e-05 73 rna-XM_009084516.1 94417 2 9695 9767 Acanthisitta chloris 57068 GAG|GTGTAGTGCA...CTCCTCTTGCTC/TGGAAAATAACC...AAAAG|GAG 2 1 4.926
497989 GT-AG 0 1.000000099473604e-05 3351 rna-XM_009084516.1 94417 3 9895 13245 Acanthisitta chloris 57068 CAG|GTAAGGAAGG...TTTTGTTTATCT/TTTTTGTTTATC...TTCAG|GAT 0 1 13.052
497990 GT-AG 0 1.5723031295490432e-05 5949 rna-XM_009084516.1 94417 4 13854 19802 Acanthisitta chloris 57068 GAG|GTAGGTACAA...GCTGCCTTGATT/CAGGAGCTTACT...CACAG|ACT 2 1 51.951
497991 GT-AG 0 1.000000099473604e-05 3128 rna-XM_009084516.1 94417 6 33096 36223 Acanthisitta chloris 57068 ATG|GTAGGTGAGG...CCTTTTTTGATT/CCTTTTTTGATT...CAAAG|GCC 1 1 60.525
497992 GT-AG 0 1.000000099473604e-05 1996 rna-XM_009084516.1 94417 7 36357 38352 Acanthisitta chloris 57068 AAG|GTAAAGCTGT...TGACTCTTACTG/ACTGTCCTGATT...TGCAG|GCT 2 1 69.034
497993 GT-AG 0 1.000000099473604e-05 1206 rna-XM_009084516.1 94417 8 38588 39793 Acanthisitta chloris 57068 AAG|GTAAAGCTTT...CCGGTGCTAACG/CCGGTGCTAACG...CAGAG|CGT 0 1 84.069

Advanced export

JSON shape: default, array, newline-delimited, object

CSV options: 

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]);