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 = 5773968

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
29498970 GT-AG 0 0.0001106256645174 256 rna-XM_029270978.1 5773968 1 6295936 6296191 Cajanus cajan 3821 CAG|GTAGTCATAA...TATATTTTACTC/ATATATTTTACT...TGCAG|ATA 1 1 34.862
29498971 GT-AG 0 1.000000099473604e-05 123 rna-XM_029270978.1 5773968 2 6294908 6295030 Cajanus cajan 3821 GAG|GTGAGTCACT...TAATTTTTATAA/ATAATTTTTATA...AATAG|GAA 0 1 61.464
29498972 GT-AG 0 0.013476412445568 310 rna-XM_029270978.1 5773968 3 6294199 6294508 Cajanus cajan 3821 CAA|GTATGTATTC...AATATTTTAATG/AATGTTTTCACT...ACCAG|GAG 0 1 73.192
29498973 GT-AG 0 0.0030558036715827 318 rna-XM_029270978.1 5773968 4 6293653 6293970 Cajanus cajan 3821 CAG|GTATGTATTT...TTCACTTTATTT/ATTATTTTCACT...AGCAG|ACT 0 1 79.894
29498974 GT-AG 0 0.0007975344497655 301 rna-XM_029270978.1 5773968 5 6293133 6293433 Cajanus cajan 3821 CAG|GTATGTATTT...AATATTTTATTA/ATTATTTTCACT...TGCAG|CAG 0 1 86.332
29498975 GT-AG 0 0.002891287148159 312 rna-XM_029270978.1 5773968 6 6292590 6292901 Cajanus cajan 3821 CAA|GTATGTGTTC...AATATTTTATTA/TATTATTTTACT...ATCAG|GAG 0 1 93.122
29498976 GT-AG 0 1.000000099473604e-05 137 rna-XM_029270978.1 5773968 7 6292248 6292384 Cajanus cajan 3821 TGG|GTAAGAAATC...TATATTTTATTA/TTATATTTTATT...AGCAG|GTG 1 1 99.148

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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]);