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)

6 rows where transcript_id = 4621485

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Suggested facets: 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
24327941 GT-AG 0 0.000317479253582 153 rna-XM_024456923.1 4621485 1 75059972 75060124 Brachypodium distachyon 15368 ATG|GTAACTCTAT...CTCGTCTTGTAT/ATTAAACTGATC...TGTAG|TTG 0 1 0.063
24327942 GT-AG 0 0.0031225014016718 271 rna-XM_024456923.1 4621485 2 75058640 75058910 Brachypodium distachyon 15368 AAG|GTATATACAT...TGCTTCTTAGCC/TTGCTTCTTAGC...TGCAG|ATT 2 1 22.409
24327943 GT-AG 0 1.000000099473604e-05 67 rna-XM_024456923.1 4621485 3 75056530 75056596 Brachypodium distachyon 15368 CAG|GTACGTATCT...CAAATCTTCCCA/TGTGTGCTAAGT...ATCAG|GAT 2 1 65.438
24327944 GT-AG 0 0.0045960963423366 270 rna-XM_024456923.1 4621485 4 75056216 75056485 Brachypodium distachyon 15368 CAG|GTATTCTTAT...GTCATTTGAGAT/CAAAATGTCATT...TCCAG|GGA 1 1 66.365
24358293 GT-AG 0 1.7107364587222782e-05 98 rna-XM_024456923.1 4621485 5 75054712 75054809 Brachypodium distachyon 15368 AAG|GTAACAACAG...TTTTCCTTTCCT/AACGATCTGACC...TGCAG|GCC   0 95.977
24358294 GT-AG 0 2.1754859739061504e-05 292 rna-XM_024456923.1 4621485 6 75054293 75054584 Brachypodium distachyon 15368 CTG|GTAAGCACAT...TTTCTTTTGATT/TTTCTTTTGATT...TGCAG|GTG   0 98.652

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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]);