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)

10 rows where transcript_id = 22631610

✎ View and edit SQL

This data as json, CSV (advanced)

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
122792109 GC-AG 0 1.000000099473604e-05 6576 rna-XM_009394091.2 22631610 1 6750654 6757229 Musa acuminata 4641 CAG|GCAAAATTCC...TTTTTTTTAAAA/TTTTTTTTAAAA...TACAG|GTT 0 1 3.62
122792110 GT-AG 0 0.0023756364923285 140 rna-XM_009394091.2 22631610 2 6757309 6757448 Musa acuminata 4641 CTG|GTACTTCTGT...TTTCTCTTAATG/TTTTCTCTTAAT...TTTAG|GTC 1 1 5.606
122792111 GT-AG 0 0.0004665865280687 3563 rna-XM_009394091.2 22631610 3 6758906 6762468 Musa acuminata 4641 CAG|GTTTCATGAT...TGCTTTTTATAT/CTGCTTTTTATA...GACAG|GAT 0 1 42.232
122792112 GT-AG 0 1.000000099473604e-05 100 rna-XM_009394091.2 22631610 4 6762541 6762640 Musa acuminata 4641 CAG|GTTTGATTGG...GGTTTCTTTTCC/CTTTTCCCCATT...TACAG|CGA 0 1 44.042
122792113 GT-AG 0 1.000000099473604e-05 738 rna-XM_009394091.2 22631610 5 6762719 6763456 Musa acuminata 4641 CAG|GTCCATGTAG...ATAATCTCATTT/AATAATCTCATT...TTCAG|GGA 0 1 46.003
122792114 GT-AG 0 1.1989777664952363e-05 728 rna-XM_009394091.2 22631610 6 6764349 6765076 Musa acuminata 4641 AAG|GTGACTTCAA...TACTGCTTAGCA/TCTGTATTTACT...TTCAG|GCA 1 1 68.426
122792115 GT-AG 0 0.000235943589797 386 rna-XM_009394091.2 22631610 7 6765208 6765593 Musa acuminata 4641 AAG|GTACATTCTC...TTCGCTTTTGCA/TCAAGTTTAAAC...GTCAG|GTT 0 1 71.719
122792116 GT-AG 0 1.3944366107805936e-05 456 rna-XM_009394091.2 22631610 8 6765816 6766271 Musa acuminata 4641 AAT|GTAAGTATTT...CCTATTTTATTA/GCCTATTTTATT...TATAG|GAT 0 1 77.3
122792117 GT-AG 0 7.587407535934672e-05 95 rna-XM_009394091.2 22631610 9 6766860 6766954 Musa acuminata 4641 GAG|GTCTGCCATG...TTTTTCTTCTTT/CTGTATTTAAGA...TACAG|GTT 0 1 92.081
122792118 GT-AG 0 0.0063061574853347 7879 rna-XM_009394091.2 22631610 10 6767165 6775043 Musa acuminata 4641 CAG|GTACCATATC...TCTTCCTTCACT/TCTTCCTTCACT...TACAG|GAA 0 1 97.36

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]);