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 = 8116037

✎ 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
43326439 GT-AG 0 1.000000099473604e-05 1854 rna-XM_010124093.1 8116037 2 41101 42954 Chlamydotis macqueenii 187382 CTG|GTGAGCACAA...CAGACGTTAACA/CAGTGGTTAAAT...TCTAG|GTT 2 1 17.154
43326440 GT-AG 0 1.000000099473604e-05 1658 rna-XM_010124093.1 8116037 3 39322 40979 Chlamydotis macqueenii 187382 AAG|GTAATCACAG...TTTTTTTTGTTT/TTGTTGTCTACT...GACAG|GAG 0 1 32.529
43326441 GT-AG 0 1.000000099473604e-05 13288 rna-XM_010124093.1 8116037 4 25920 39207 Chlamydotis macqueenii 187382 AAG|GTAAAGGTGT...TGTGTGTTATTT/AGGAATCTAACT...ACTAG|GGA 0 1 47.014
43326442 GT-AG 0 1.000000099473604e-05 7473 rna-XM_010124093.1 8116037 5 18278 25750 Chlamydotis macqueenii 187382 CAG|GTAAGTGCCA...GAGTTCCTAACA/GAGTTCCTAACA...TTCAG|TGT 1 1 68.488
43326443 GT-AG 0 1.000000099473604e-05 9239 rna-XM_010124093.1 8116037 6 9003 18241 Chlamydotis macqueenii 187382 GAG|GTGAGTGCTG...TTTGTCTTCACG/GATGTCCTCATT...AATAG|GTG 1 1 73.062
43326444 GT-AG 0 1.3265075754415767e-05 2479 rna-XM_010124093.1 8116037 7 6384 8862 Chlamydotis macqueenii 187382 GAG|GTACTTCGAT...TTTCTCTTCCTT/TTTCCTGTTATG...TGCAG|GCA 0 1 90.851
43326447 GT-AG 0 1.000000099473604e-05 3878 rna-XM_010124093.1 8116037 1 43032 46909 Chlamydotis macqueenii 187382 TAT|GTGAGTAATG...CTGTTTTTGTTT/AGAAAAATGACC...ACCAG|GTG   0 8.513

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]);