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 = 15495827

✎ View and edit SQL

This data as json, CSV (advanced)

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
83763109 GT-AG 0 1.000000099473604e-05 426 rna-XM_003516669.4 15495827 2 56415262 56415687 Glycine max 3847 GAG|GTGTGTAGAC...CTGATTTTATTT/GCTGATTTTATT...TTCAG|TTA 0 1 53.621
83763110 GT-AG 0 1.000000099473604e-05 1116 rna-XM_003516669.4 15495827 3 56413988 56415103 Glycine max 3847 AAG|GTAGTATTGA...AGTCTATTGATA/AGTCTATTGATA...AACAG|GGA 2 1 57.906
83763111 GT-AG 0 0.0883609809785728 1081 rna-XM_003516669.4 15495827 4 56412072 56413152 Glycine max 3847 AAG|GTATGTTTTG...CATGCTTTGACT/CATGCTTTGACT...TTCAG|TTA 0 1 80.553
83763112 GT-AG 0 1.1158806436169335e-05 1644 rna-XM_003516669.4 15495827 5 56410281 56411924 Glycine max 3847 GAG|GTAAACCCCC...AATTTTTTTTCT/CAATAACTAATC...TCCAG|AGA 0 1 84.54
83763113 GT-AG 0 2.520279798322968e-05 314 rna-XM_003516669.4 15495827 6 56409649 56409962 Glycine max 3847 AAG|GTTTGGTTTT...GATTACTTAAAT/ATGTTTATGATT...GACAG|AAT 0 1 93.165
83763114 GT-AG 0 9.568531524512714e-05 338 rna-XM_003516669.4 15495827 7 56409251 56409588 Glycine max 3847 GAG|GTATATACTA...CTGGCATCAATC/TCACAATTTATG...TGCAG|GTT 0 1 94.793
83770998 GT-AG 0 0.0001879295991696 349 rna-XM_003516669.4 15495827 1 56417462 56417810 Glycine max 3847 ATT|GTAAGTCCTC...TTTTTTTTAAAT/TTTTTTTTAAAT...GACAG|ATT   0 8.055

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]);