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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 = 9114817

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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
49388905 GT-AG 0 1.000000099473604e-05 1856 rna-gnl|WGS:VYZG|COLPIC_R05515_mrna 9114817 1 2888724 2890579 Columbina picui 115618 AAG|GTAAAAAATG...TTCTCTTTACTT/TGTTTGTTCACT...AACAG|TAG 1 1 4.066
49388906 GT-AG 0 1.000000099473604e-05 836 rna-gnl|WGS:VYZG|COLPIC_R05515_mrna 9114817 2 2886657 2887492 Columbina picui 115618 AAG|GTAGAACATT...TACTTCTTGATC/ATGGTATTTACT...CACAG|GAC 2 1 27.131
49388907 GT-AG 0 1.000000099473604e-05 1165 rna-gnl|WGS:VYZG|COLPIC_R05515_mrna 9114817 3 2885367 2886531 Columbina picui 115618 GAG|GTGAGAAATA...CATAATTTAACT/CATAATTTAACT...TTCAG|CCA 1 1 29.473
49388908 GT-AG 0 1.000000099473604e-05 1686 rna-gnl|WGS:VYZG|COLPIC_R05515_mrna 9114817 4 2883592 2885277 Columbina picui 115618 TTG|GTTAGTATTA...TGTTTTGTATCT/AAGTGGGTGATT...TTCAG|GCT 0 1 31.141
49388909 GT-AG 0 1.000000099473604e-05 1875 rna-gnl|WGS:VYZG|COLPIC_R05515_mrna 9114817 5 2881640 2883514 Columbina picui 115618 AAG|GTAAGAATGT...TCATTGTAATAT/CATTGTAATATA...CATAG|GCG 2 1 32.584
49388910 GT-AG 0 1.000000099473604e-05 1137 rna-gnl|WGS:VYZG|COLPIC_R05515_mrna 9114817 6 2880347 2881483 Columbina picui 115618 GAG|GTTCGATTCA...TCTTTCTTTTTT/AATGTGTTTATC...TTCAG|AAA 2 1 35.507
49388911 GT-AG 0 1.000000099473604e-05 1347 rna-gnl|WGS:VYZG|COLPIC_R05515_mrna 9114817 7 2876670 2878016 Columbina picui 115618 CAG|GTATGGGCAT...AATGCTTTAATG/AATGCTTTAATG...ATAAG|GAT 1 1 79.164
49388912 GT-AG 0 1.000000099473604e-05 727 rna-gnl|WGS:VYZG|COLPIC_R05515_mrna 9114817 8 2875857 2876583 Columbina picui 115618 CTG|GTTAGTAGAT...AAATTTATAGCT/AGCTTGCTTATA...TTTAG|AAG 0 1 80.776
49388913 GT-AG 0 1.1278384599281006e-05 1025 rna-gnl|WGS:VYZG|COLPIC_R05515_mrna 9114817 9 2874789 2875813 Columbina picui 115618 AAG|GTACGTCATG...TCATTTTTATTG/CTATTTCTCACC...TGAAG|GTC 1 1 81.581
49388914 GT-AG 0 7.323241537102422e-05 1446 rna-gnl|WGS:VYZG|COLPIC_R05515_mrna 9114817 10 2873098 2874543 Columbina picui 115618 CTG|GTATGGATAA...TTTTCCTTTGTC/TTTGTTCTAATC...GCTAG|AAT 0 1 86.172
49388915 GT-AG 0 1.000000099473604e-05 3139 rna-gnl|WGS:VYZG|COLPIC_R05515_mrna 9114817 11 2869840 2872978 Columbina picui 115618 CAA|GTAAGAAATC...CAGATCTTACTT/ATCTTACTTATC...TACAG|CTA 2 1 88.402
49388916 GT-AG 0 1.001922371502261 105 rna-gnl|WGS:VYZG|COLPIC_R05515_mrna 9114817 12 2869596 2869700 Columbina picui 115618 AAG|GTATCTTTAT...CTAGCTTCAACA/CCTAGCTTCAAC...TACAG|GCA 0 1 91.006
49388917 GT-AG 0 1.000000099473604e-05 2205 rna-gnl|WGS:VYZG|COLPIC_R05515_mrna 9114817 13 2867205 2869409 Columbina picui 115618 CAG|GTAAACATAA...CTGTGCTTATGA/GCTGTGCTTATG...TAAAG|GGT 0 1 94.491
49388918 GT-AG 0 1.000000099473604e-05 1786 rna-gnl|WGS:VYZG|COLPIC_R05515_mrna 9114817 14 2865250 2867035 Columbina picui 115618 AAG|GTAGGAATAA...ACGATTTTAACC/ACGATTTTAACC...TACAG|AGT 1 1 97.658

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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 26.394ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)