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)

6 rows where transcript_id = 24462888

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: score, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
133657940 GT-AG 0 1.000000099473604e-05 112 rna-XM_004391529.2 24462888 2 12447177 12447288 Odobenus rosmarus 9707 CCG|GTGAGTACAG...TTCATCTTTTCT/TCTTGCTTCATC...CAAAG|ATT 0 1 16.732
133657941 GT-AG 0 5.494156236498443e-05 2907 rna-XM_004391529.2 24462888 3 12444231 12447137 Odobenus rosmarus 9707 CAG|GTAAGCATCT...CCTTTTTTAATA/CCTTTTTTAATA...TGTAG|CTT 0 1 20.571
133657942 GT-AG 0 0.0037545581410423 291 rna-XM_004391529.2 24462888 4 12443859 12444149 Odobenus rosmarus 9707 CAG|GTATTTTTAA...ACATATTTGATG/TGTAAACTGATA...TTCAG|AAT 0 1 28.543
133657943 GT-AG 0 2.812232580525598e-05 1068 rna-XM_004391529.2 24462888 5 12442749 12443816 Odobenus rosmarus 9707 AAG|GTAAGTTCTC...AAACCCTTACCC/AAAACCCTTACC...TTTAG|ACC 0 1 32.677
133657944 GT-AG 0 1.000000099473604e-05 890 rna-XM_004391529.2 24462888 6 12441580 12442469 Odobenus rosmarus 9707 CAG|GTAAATCCTT...CTTCATTTAATT/CTTCATTTAATT...TTCAG|TAT 0 1 60.138
133658040 GT-AG 0 1.1127547056334804e-05 1130 rna-XM_004391529.2 24462888 1 12447354 12448483 Odobenus rosmarus 9707 AAG|GTAAGCCCGC...TATTCCTTATAA/ATATTCCTTATA...TGCAG|GAA   0 11.417

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]);