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)

9 rows where transcript_id = 13851069

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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
73762847 GT-AG 0 0.0093260313783702 162 rna-XM_012994263.1 13851069 1 1385906 1386067 Erythranthe guttata 4155 AAG|GTATACATAT...TATTTATTAACC/TATTTATTTATT...TGCAG|GTG 1 1 4.136
73762848 GT-AG 0 0.0002760586650305 110 rna-XM_012994263.1 13851069 2 1384122 1384231 Erythranthe guttata 4155 CTG|GTTTGTTTGT...TCTTCATTAAAT/ATTAAATTTAGT...TACAG|GTG 1 1 45.105
73762849 GT-AG 0 1.000000099473604e-05 100 rna-XM_012994263.1 13851069 3 1383774 1383873 Erythranthe guttata 4155 GTG|GTAAAATATA...TAATATTTGATA/TAATATTTGATA...TTTAG|GTA 0 1 51.175
73762850 GT-AG 0 0.003861306571302 74 rna-XM_012994263.1 13851069 4 1383490 1383563 Erythranthe guttata 4155 GAG|GTATTTCTTG...AGCATTTTATAT/CATATATTTACG...GACAG|ATA 0 1 56.314
73762851 GT-AG 0 1.000000099473604e-05 92 rna-XM_012994263.1 13851069 5 1383179 1383270 Erythranthe guttata 4155 CCC|GTGAGTACTA...ATATTTTTATTT/CATATTTTTATT...CTCAG|GTA 0 1 61.674
73762852 GT-AG 0 1.000000099473604e-05 230 rna-XM_012994263.1 13851069 6 1381989 1382218 Erythranthe guttata 4155 CAG|GTTTGTGATG...CTCTCCATAAAT/ATGAATCTCAAT...TGCAG|GCG 0 1 85.169
73762853 GT-AG 0 1.000000099473604e-05 122 rna-XM_012994263.1 13851069 7 1381771 1381892 Erythranthe guttata 4155 GAG|GTAATTATTA...ATGAATTTAATT/ATGAATTTAATT...TGCAG|GTG 0 1 87.518
73762854 GT-AG 0 5.673739786356823e-05 78 rna-XM_012994263.1 13851069 8 1381594 1381671 Erythranthe guttata 4155 CAG|GTAGTTAATT...ATTGTCTTAATT/TTAGTACTAATT...TGCAG|ATT 0 1 89.941
73762855 GT-AG 0 1.3928155026362212e-05 101 rna-XM_012994263.1 13851069 9 1381303 1381403 Erythranthe guttata 4155 AGG|GTACGTACGT...TAACTATTAATT/ATATGTTTGATT...TATAG|CTT 1 1 94.591

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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]);