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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)

14 rows where transcript_id = 2279608

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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
12239855 GT-AG 0 0.1931671394795816 63 rna-XM_027998273.1 2279608 1 4589288 4589350 Aphis gossypii 80765 AAG|GTATCATGCT...TTATTCTTACTA/TTTATTCTTACT...TGTAG|ATC 0 1 4.993
12239856 GT-AG 0 0.1297067593438587 74 rna-XM_027998273.1 2279608 2 4589090 4589163 Aphis gossypii 80765 TTG|GTATCTAAAC...TATTTATTAATC/TATTTATTAATC...TAAAG|GTA 1 1 10.726
12239857 GT-AG 0 1.000000099473604e-05 195 rna-XM_027998273.1 2279608 3 4588780 4588974 Aphis gossypii 80765 CAT|GTGAGTAGAT...CTAATTTTAATG/TAATTACTAATT...ATTAG|GTA 2 1 16.043
12239858 GT-AG 0 0.0005481795591253 68 rna-XM_027998273.1 2279608 4 4588582 4588649 Aphis gossypii 80765 AAG|GTAAACTATA...CTTTTTTTAAAT/CTTTTTTTAAAT...TTTAG|ATG 0 1 22.053
12239859 GT-AG 0 1.198157996895851 79 rna-XM_027998273.1 2279608 5 4588306 4588384 Aphis gossypii 80765 AAA|GTATATTTTA...TATTTTTTATTT/TTTTTATTTACT...ATTAG|AAA 2 1 31.16
12239860 GT-AG 0 0.0064411794651612 71 rna-XM_027998273.1 2279608 6 4588057 4588127 Aphis gossypii 80765 TAT|GTAATTTTTA...TAAACTTTAATA/AATGTATTTATT...TTTAG|AGT 0 1 39.39
12239861 GT-AG 0 1.000000099473604e-05 67 rna-XM_027998273.1 2279608 7 4587905 4587971 Aphis gossypii 80765 CAG|GTTATTAAGT...TAATACTTGACG/TAAATACTGATT...TTTAG|GTT 1 1 43.319
12239862 GT-AG 0 1.000000099473604e-05 206 rna-XM_027998273.1 2279608 8 4587590 4587795 Aphis gossypii 80765 AAG|GTAAGCATAT...ACCATTTTAAAT/TATTTAGTTATT...TGTAG|GAC 2 1 48.359
12239863 GT-AG 0 2.2387670211534715e-05 92 rna-XM_027998273.1 2279608 9 4587383 4587474 Aphis gossypii 80765 TCT|GTAAGAATAA...AATTTTTTATTT/AAATTTTTTATT...CACAG|ATG 0 1 53.675
12239864 GT-AG 0 0.0001205175020267 710 rna-XM_027998273.1 2279608 10 4586517 4587226 Aphis gossypii 80765 GAG|GTATTAATAG...ATGTTTTTGATT/ATGTTTTTGATT...TTTAG|GAT 0 1 60.888
12239865 GT-AG 0 0.0001176308250381 218 rna-XM_027998273.1 2279608 11 4586102 4586319 Aphis gossypii 80765 AGT|GTAAGTTGTA...ATACCATTAAAA/ATAATATTAATA...TCTAG|TTA 2 1 69.995
12239866 GT-AG 0 0.0002284885913503 72 rna-XM_027998273.1 2279608 12 4585859 4585930 Aphis gossypii 80765 TAG|GTAGTTTATT...TTACTCTTATTT/TCTTATTTAATT...TTTAG|TCG 2 1 77.901
12239867 GT-AG 0 1.3927698369300515e-05 62 rna-XM_027998273.1 2279608 13 4585687 4585748 Aphis gossypii 80765 ATG|GTTTGTATAT...TAATTTATAGTT/TTATAGTTCATC...TACAG|AAA 1 1 82.987
12239868 GT-AG 0 1.000000099473604e-05 91 rna-XM_027998273.1 2279608 14 4585365 4585455 Aphis gossypii 80765 AAG|GTGTGAATGT...ATTATTTTAATT/ATTATTTTAATT...TTTAG|CTA 1 1 93.666

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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]);
Powered by Datasette · Queries took 28.424ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)