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)

8 rows where transcript_id = 28837510

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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
160841363 GT-AG 0 1.000000099473604e-05 90 rna-XM_011046325.1 28837510 1 1697269 1697358 Populus euphratica 75702 AAG|GTAATAACAC...AAGTCCCTGATT/AAGTCCCTGATT...ATTAG|GTA 0 1 11.524
160841364 GT-AG 0 0.0001806588004307 81 rna-XM_011046325.1 28837510 2 1697036 1697116 Populus euphratica 75702 CAG|GTAGATTTTC...GTTTTGTTAATG/ATTAGATTAATT...CGCAG|GAC 2 1 17.803
160841365 GT-AG 0 0.0002816850943028 218 rna-XM_011046325.1 28837510 3 1696695 1696912 Populus euphratica 75702 CCG|GTACACGAAT...GTCGTTTTGAAC/ACTTCTTTCATT...GCCAG|ATT 2 1 22.883
160841366 GT-AG 0 3.6527387268036566e-05 251 rna-XM_011046325.1 28837510 4 1696299 1696549 Populus euphratica 75702 AGT|GTAAGTTCAG...TCCTCCTTTTTT/CTTTTGTTCATT...TGCAG|GTT 0 1 28.872
160841367 GT-AG 0 0.1144623418783724 352 rna-XM_011046325.1 28837510 5 1695885 1696236 Populus euphratica 75702 AAG|GTATATTTTG...AGTGCTTTATTT/AAGTGCTTTATT...AGCAG|TGT 2 1 31.433
160841368 GT-AG 0 1.000000099473604e-05 399 rna-XM_011046325.1 28837510 6 1695272 1695670 Populus euphratica 75702 CAG|GTAATATTCA...GTTATCTTAAAA/TTTGATTTGATG...TCCAG|GGC 0 1 40.273
160841369 GT-AG 0 1.000000099473604e-05 551 rna-XM_011046325.1 28837510 8 1693783 1694333 Populus euphratica 75702 AAG|GTGAGAATCC...GGGTTTTTAATC/GGGTTTTTAATC...TGTAG|GTC 0 1 78.934
160841370 GT-AG 0 6.00870285304803e-05 260 rna-XM_011046325.1 28837510 9 1693273 1693532 Populus euphratica 75702 TTG|GTAATCAATT...GTCACCTTACAA/TATTGTTTAATT...TGCAG|ACC 1 1 89.261

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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]);