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 = 23200022

✎ 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
126230894 GT-AG 0 1.000000099473604e-05 242 rna-gnl|WGS:MCOG|LY90DRAFT_mRNA696698 23200022 1 1198234 1198475 Neocallimastix californiae 1754190 AAG|GTTAATATAG...ATTACATTATCA/ATGTTATTTATA...AATAG|TAT 1 1 4.335
126230895 GT-AG 0 5.455534865851808e-05 157 rna-gnl|WGS:MCOG|LY90DRAFT_mRNA696698 23200022 2 1198005 1198161 Neocallimastix californiae 1754190 CTG|GTAAATTTAA...ATATATTTAATT/ATATATTTAATT...AATAG|AAT 1 1 9.453
126230896 GT-AG 0 0.1025452732907428 379 rna-gnl|WGS:MCOG|LY90DRAFT_mRNA696698 23200022 3 1197479 1197857 Neocallimastix californiae 1754190 GCT|GTATGTAATA...TTTTTTTTAAAA/TTTTAATTAATA...GAAAG|CAT 1 1 19.9
126230897 GT-AG 0 1.000000099473604e-05 328 rna-gnl|WGS:MCOG|LY90DRAFT_mRNA696698 23200022 4 1196759 1197086 Neocallimastix californiae 1754190 AAG|GTAAAAAAAA...ATTTATTTAATA/ATATTATTTATT...TATAG|CCA 0 1 47.761
126230898 GT-AG 0 0.0007678244491095 215 rna-gnl|WGS:MCOG|LY90DRAFT_mRNA696698 23200022 5 1196346 1196560 Neocallimastix californiae 1754190 GTG|GTACGTATAT...TTTTTTTTAATA/TTTTTTTTAATA...TAAAG|CCA 0 1 61.834
126230899 GT-AG 0 1.000000099473604e-05 304 rna-gnl|WGS:MCOG|LY90DRAFT_mRNA696698 23200022 6 1195663 1195966 Neocallimastix californiae 1754190 TGA|GTAATAAAAA...ATTATTTTAACT/ATTATTTTAACT...AATAG|AAG 1 1 88.77

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]);