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 = 7476851

✎ View and edit SQL

This data as json, CSV (advanced)

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
39173409 GT-AG 0 1.3828886483178436e-05 41109 rna-gnl|WGS:WBNC|CERFAM_R09612_mrna 7476851 1 4023883 4064991 Certhia familiaris 73333 GCA|GTAAGTACAC...TTTTTCTTTCTA/TTTCTTTCTATC...CACAG|ATG 0 1 13.265
39173410 GT-AG 0 1.000000099473604e-05 27738 rna-gnl|WGS:WBNC|CERFAM_R09612_mrna 7476851 2 4065103 4092840 Certhia familiaris 73333 GAT|GTAAGTAGAT...TGAGCCTGATTG/ATGAGCCTGATT...TGTAG|AGC 0 1 22.704
39173411 GT-AG 0 1.000000099473604e-05 55873 rna-gnl|WGS:WBNC|CERFAM_R09612_mrna 7476851 3 4093004 4148876 Certhia familiaris 73333 CAG|GTTAAGCGAC...TTGTTTTTATTT/TTTTTTTTCATT...CACAG|ACG 1 1 36.565
39173412 GT-AG 0 1.000000099473604e-05 1943 rna-gnl|WGS:WBNC|CERFAM_R09612_mrna 7476851 4 4149111 4151053 Certhia familiaris 73333 GTG|GTGAGATGGA...AAGTTCTTTCTG/CTGTTTCCCATT...TCCAG|GGA 1 1 56.463
39173413 GT-AG 0 0.0086302446382265 1302 rna-gnl|WGS:WBNC|CERFAM_R09612_mrna 7476851 5 4151233 4152534 Certhia familiaris 73333 CAG|GTACTCTCCC...CCACCCTTAAAA/GTGGAACTAATT...AACAG|CAC 0 1 71.684
39173414 GT-AG 0 1.000000099473604e-05 4181 rna-gnl|WGS:WBNC|CERFAM_R09612_mrna 7476851 6 4152637 4156817 Certhia familiaris 73333 GGG|GTAAGCCAAT...TTTCTCTTCTTC/GAAAAAATTATA...CACAG|GTA 0 1 80.357

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]);