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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 = 3485062

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Suggested facets: score, 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
17202790 GT-AG 0 1.000000099473604e-05 2604 rna-gnl|WGS:SAUD|Avbf_03768-RA_mrna 3485062 2 34680 37283 Armadillidium vulgare 13347 CAG|GTTAAAATTT...ATATATATATAT/TATATATATATA...TATAG|AAC 0 1 25.413
17202791 GT-AG 0 1.000000099473604e-05 184 rna-gnl|WGS:SAUD|Avbf_03768-RA_mrna 3485062 3 34244 34427 Armadillidium vulgare 13347 GGG|GTGAGATATT...TATATTTTATTT/ATTTTATTTATT...TTCAG|CCT 0 1 32.351
17202792 GT-AG 0 0.0001921628913561 1904 rna-gnl|WGS:SAUD|Avbf_03768-RA_mrna 3485062 4 31888 33791 Armadillidium vulgare 13347 GGC|GTAAGTTTAG...AATTATTTGACT/TTTTGTTTTATT...TATAG|CGG 2 1 44.796
17202793 GT-AG 0 9.401977649831704e-05 1197 rna-gnl|WGS:SAUD|Avbf_03768-RA_mrna 3485062 5 30536 31732 Armadillidium vulgare 13347 AAA|GTAAGTTTAT...CATTTCTAAATT/ACATTTCTAAAT...TGTAG|GTA 1 1 49.064
17202794 GT-AG 0 3.222783139817646e-05 1582 rna-gnl|WGS:SAUD|Avbf_03768-RA_mrna 3485062 6 28722 30303 Armadillidium vulgare 13347 AAG|GTAACAAGTG...TTTATTTTATTT/TTTTATTTTATT...TTTAG|TCG 2 1 55.452
17202795 GT-AG 0 0.0001876626689328 590 rna-gnl|WGS:SAUD|Avbf_03768-RA_mrna 3485062 7 28008 28597 Armadillidium vulgare 13347 AAA|GTACGTTTAT...ATATATATAATT/ATATATATAATT...TACAG|AGA 0 1 58.866
17202796 GT-AG 0 1.000000099473604e-05 1880 rna-gnl|WGS:SAUD|Avbf_03768-RA_mrna 3485062 8 25986 27865 Armadillidium vulgare 13347 GAG|GTAAGCGCTT...CAATTCATAATT/CATAATTTTATA...TTCAG|ACT 1 1 62.775
17202797 GT-AG 0 0.8271383253031561 1790 rna-gnl|WGS:SAUD|Avbf_03768-RA_mrna 3485062 9 24028 25817 Armadillidium vulgare 13347 ATC|GTATCAAGAT...CTTACCTTATCT/AGAATTTTCATC...TGCAG|AAG 1 1 67.401
17202798 GT-AG 0 1.000000099473604e-05 91 rna-gnl|WGS:SAUD|Avbf_03768-RA_mrna 3485062 10 23758 23848 Armadillidium vulgare 13347 TTG|GTTAGTACAG...GTATTTTTAAAC/GTATTTTTAAAC...TTCAG|GAG 0 1 72.329
17202799 GT-AG 0 2.1753690607094515e-05 1332 rna-gnl|WGS:SAUD|Avbf_03768-RA_mrna 3485062 11 22312 23643 Armadillidium vulgare 13347 GAA|GTAAGTCTTT...AAAGTTTTAAAT/AAAGTTTTAAAT...TATAG|GGT 0 1 75.468
17202800 GT-AG 0 0.0002018584632118 5859 rna-gnl|WGS:SAUD|Avbf_03768-RA_mrna 3485062 12 16295 22153 Armadillidium vulgare 13347 AGG|GTATGTAAAT...TTAGTCTTAAGT/TTAGTATTGAGT...TCCAG|ACC 2 1 79.818
17202801 GT-AG 0 0.2535248638246685 467 rna-gnl|WGS:SAUD|Avbf_03768-RA_mrna 3485062 13 15633 16099 Armadillidium vulgare 13347 GAG|GTATCTTGAA...TTCTTCTAGATA/AATTAATTAATT...TGTAG|GTT 2 1 85.187
17202802 GT-AG 0 4.222700080810695e-05 99 rna-gnl|WGS:SAUD|Avbf_03768-RA_mrna 3485062 14 15459 15557 Armadillidium vulgare 13347 AAA|GTAAGTTCAT...TTTTTTTTATTA/CTTTTTTTTATT...TATAG|AGC 2 1 87.252
17202803 GT-AG 0 0.0242297712202363 7891 rna-gnl|WGS:SAUD|Avbf_03768-RA_mrna 3485062 1 37744 45634 Armadillidium vulgare 13347 CGA|GTATGTGTGT...AATATCTTATCT/CATCTTTTTACA...ATCAG|AAT   0 13.023

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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 23.933ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)