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 = 16823356

✎ 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
89670198 GT-AG 0 1.000000099473604e-05 4288 rna-XM_010561522.1 16823356 3 27230662 27234949 Haliaeetus leucocephalus 52644 ACG|GTATGAGCAC...AGACTTTTATTT/CTTTTATTTATC...CTCAG|GGC 2 1 13.233
89670199 GT-AG 0 2.8128210112720973e-05 553 rna-XM_010561522.1 16823356 4 27230007 27230559 Haliaeetus leucocephalus 52644 CTG|GTAAGTTTGT...AATGTTTTAAAT/GTTTGTTTAACT...TACAG|GAA 2 1 16.795
89670200 GT-AG 0 1.000000099473604e-05 3100 rna-XM_010561522.1 16823356 5 27225100 27228199 Haliaeetus leucocephalus 52644 AAG|GTAACACAAC...GGCTATTTATTT/TGGCTATTTATT...TCCAG|ACT 0 1 79.888
89670201 GT-AG 0 7.02067939520249e-05 115 rna-XM_010561522.1 16823356 6 27224850 27224964 Haliaeetus leucocephalus 52644 AGG|GTAAGCCTTC...AAATACTTAACG/GGTGTTTTCAAT...GGCAG|GTG 0 1 84.602
89670202 GT-AG 0 0.0004309470945011 1761 rna-XM_010561522.1 16823356 7 27222908 27224668 Haliaeetus leucocephalus 52644 AAG|GTAACTGTTT...ACTGGTTTAACC/ACTGGTTTAACC...TGTAG|ATG 1 1 90.922
89672283 GT-AG 0 1.000000099473604e-05 6712 rna-XM_010561522.1 16823356 1 27235484 27242195 Haliaeetus leucocephalus 52644 CAG|GTGAGTCCAA...CTTCCCTTTGTT/TGTGTTCTCAGG...CTCAG|AAG   0 3.666
89672284 GT-AG 0 0.0025999708427136 243 rna-XM_010561522.1 16823356 2 27235113 27235355 Haliaeetus leucocephalus 52644 TAA|GTAATTTTTA...GTTTCCTTCTTT/TCTTTTTTCAAC...GGTAG|ATA   0 8.135

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]);