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)

8 rows where transcript_id = 31249618

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
174209220 GT-AG 0 0.0003929064637287 66 rna-FME351_LOCUS157 31249618 1 171939 172004 Rotaria socialis 392032 TTG|GTATTGAATA...ATAATCTTAATT/AATCTATTTACT...TAAAG|GAG 0 1 55.326
174209221 GT-AG 0 1.000000099473604e-05 53 rna-FME351_LOCUS157 31249618 2 171840 171892 Rotaria socialis 392032 AAG|GTTCGAAAAA...TAAACTTTATAT/CTAAACTTTATA...TTTAG|ATT 1 1 56.911
174209222 GT-AG 0 0.0009920660425856 69 rna-FME351_LOCUS157 31249618 3 171640 171708 Rotaria socialis 392032 CAA|GTATGTGCTT...TTCTTTTTAGAA/TTTTGTTTTACG...TCTAG|AAT 0 1 61.427
174209223 GT-AG 0 0.0001506791680089 73 rna-FME351_LOCUS157 31249618 4 171362 171434 Rotaria socialis 392032 AAT|GTACATGAAG...TCTTTTTTGAAT/TCTTTTTTGAAT...TCTAG|TAT 1 1 68.494
174209224 GT-AG 0 0.0005743343971879 82 rna-FME351_LOCUS157 31249618 5 171072 171153 Rotaria socialis 392032 AAG|GTTTGTTTGT...TTTTTTTTACCT/GTTTTTTTTACC...TAAAG|TAA 2 1 75.664
174209225 GT-AG 0 0.0798159105405827 62 rna-FME351_LOCUS157 31249618 6 170894 170955 Rotaria socialis 392032 TTG|GTATCTAAAA...TTACATTTGATT/ATTTGATTTATT...TTCAG|TTC 1 1 79.662
174209226 GT-AG 0 1.000000099473604e-05 56 rna-FME351_LOCUS157 31249618 7 170779 170834 Rotaria socialis 392032 AAA|GTAAAATTAT...TTGCTTTTATAG/GTTGCTTTTATA...TATAG|GGT 0 1 81.696
174209227 GT-AG 0 2.9692462600998716e-05 54 rna-FME351_LOCUS157 31249618 8 170602 170655 Rotaria socialis 392032 CTG|GTTTGTTTAT...ATTATTCTATTG/TAAGAATTCATT...TCTAG|ATT 0 1 85.936

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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]);