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 = 38690329

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Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
213933218 GT-AG 0 0.1713104319784941 1590 rna-XM_025067849.1 38690329 1 4327099 4328688 Ziziphus jujuba 326968 TGA|GTATGTTTTT...GGATCCTTTGCA/ATGAAATTAACT...TGCAG|GTT 2 1 3.517
213933219 GT-AG 0 7.411051239429134e-05 1116 rna-XM_025067849.1 38690329 2 4325819 4326934 Ziziphus jujuba 326968 CTG|GTATGACTTA...ATATTCATGACA/TTAATATTCATG...TGCAG|GTT 1 1 7.238
213933220 GT-AG 0 1.139859688980664 110 rna-XM_025067849.1 38690329 3 4325585 4325694 Ziziphus jujuba 326968 CAA|GTATCACTTT...TCTACTTTACCA/AATATTCTAACC...TTCAG|ATT 2 1 10.052
213933221 GT-AG 0 1.6471675339020002e-05 708 rna-XM_025067849.1 38690329 4 4324744 4325451 Ziziphus jujuba 326968 AAG|GTATGAACAG...TTTTTCTCAATT/GTTTTTCTCAAT...GACAG|AAA 0 1 13.07
213933222 GT-AG 0 1.000000099473604e-05 88 rna-XM_025067849.1 38690329 5 4324585 4324672 Ziziphus jujuba 326968 CAG|GTGATCAGTC...TATGATTTAATG/TATGATTTAATG...TGCAG|CAT 2 1 14.681
213933223 GC-AG 0 0.0028087864092834 112 rna-XM_025067849.1 38690329 6 4320965 4321076 Ziziphus jujuba 326968 CTT|GCCTGTTTTT...AATTCTTTGTTT/AAAATACTTATT...AGCAG|CTC 0 1 94.282
213933224 GT-AG 0 1.000000099473604e-05 307 rna-XM_025067849.1 38690329 7 4320568 4320874 Ziziphus jujuba 326968 AAG|GTGAGTTCCC...TTTAACTTAGCT/ATAGATTTAACT...TCCAG|TCT 0 1 96.324
213933225 GT-AG 0 0.0001112816494073 103 rna-XM_025067849.1 38690329 8 4320354 4320456 Ziziphus jujuba 326968 CAG|GTTCCTAATT...TTTTCTTTTGTC/TCTTTTGTCATG...GTTAG|GCT 0 1 98.843

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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]);