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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)

16 rows where transcript_id = 9114874

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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
49389478 GT-AG 0 1.000000099473604e-05 998 rna-gnl|WGS:VYZG|COLPIC_R04105_mrna 9114874 1 1485238 1486235 Columbina picui 115618 CAG|GTGTGTGTAA...TTAACTTTATCC/TCTGTCTTTATT...TTCAG|GGA 0 1 20.815
49389479 GT-AG 0 1.000000099473604e-05 883 rna-gnl|WGS:VYZG|COLPIC_R04105_mrna 9114874 2 1486294 1487176 Columbina picui 115618 CAG|GTAGAAGCAG...TTTTCTTTAACA/TTTTCTTTAACA...CACAG|ATG 1 1 22.492
49389480 GT-AG 0 3.968692925046714e-05 2900 rna-gnl|WGS:VYZG|COLPIC_R04105_mrna 9114874 3 1488340 1491239 Columbina picui 115618 CGT|GTAAGTGGCT...TTTTTTTTAATT/TTTTTTTTAATT...TACAG|CTT 0 1 56.114
49389481 GT-AG 0 1.000000099473604e-05 947 rna-gnl|WGS:VYZG|COLPIC_R04105_mrna 9114874 4 1491323 1492269 Columbina picui 115618 AAG|GTTTGTTTAT...TAAGTGGTAATT/TAAGTACTAAGT...TTCAG|GGT 2 1 58.514
49389482 GT-AG 0 1.000000099473604e-05 254 rna-gnl|WGS:VYZG|COLPIC_R04105_mrna 9114874 5 1492387 1492640 Columbina picui 115618 CAG|GTCCTTCCAA...GAAATTTTGAAT/CTGTGTTTAAAT...TACAG|GGC 2 1 61.897
49389483 GT-AG 0 1.000000099473604e-05 1786 rna-gnl|WGS:VYZG|COLPIC_R04105_mrna 9114874 6 1492809 1494594 Columbina picui 115618 TGG|GTGAGAATAT...CCATCTTTGTCT/CACTAATTGATT...TGCAG|TTC 2 1 66.753
49389484 GT-AG 0 1.000000099473604e-05 1440 rna-gnl|WGS:VYZG|COLPIC_R04105_mrna 9114874 7 1494698 1496137 Columbina picui 115618 CAG|GTAAGACTGT...TAGTGTTTGACA/TAGTGTTTGACA...CACAG|ATA 0 1 69.731
49389485 GT-AG 0 1.000000099473604e-05 1717 rna-gnl|WGS:VYZG|COLPIC_R04105_mrna 9114874 8 1496214 1497930 Columbina picui 115618 ATG|GTGAGTATTT...ATGTCTTTTACT/ATGTCTTTTACT...TGTAG|CTT 1 1 71.928
49389486 GT-AG 0 5.800581241575801e-05 447 rna-gnl|WGS:VYZG|COLPIC_R04105_mrna 9114874 9 1498073 1498519 Columbina picui 115618 TTT|GTAAGTGTCT...TGGGCTTTGAAA/TTGTGATTTATT...ATTAG|AAC 2 1 76.034
49389487 GT-AG 0 1.000000099473604e-05 1177 rna-gnl|WGS:VYZG|COLPIC_R04105_mrna 9114874 10 1498629 1499805 Columbina picui 115618 AAG|GTGAGAAAAC...ATGTTTTTATTT/AATGTTTTTATT...TAAAG|TTT 0 1 79.185
49389488 GT-AG 0 0.0007619753487938 566 rna-gnl|WGS:VYZG|COLPIC_R04105_mrna 9114874 11 1499983 1500548 Columbina picui 115618 AAG|GTAACTTAAA...TTTTTGTTATTG/TTTTTTGTTATT...TAAAG|ATG 0 1 84.302
49389489 GT-AG 0 1.000000099473604e-05 687 rna-gnl|WGS:VYZG|COLPIC_R04105_mrna 9114874 12 1500647 1501333 Columbina picui 115618 ACG|GTAATGACAC...TTTTTTTTAAAA/TTTTTTTTAAAA...TTCAG|TGA 2 1 87.135
49389490 GT-AG 0 1.000000099473604e-05 501 rna-gnl|WGS:VYZG|COLPIC_R04105_mrna 9114874 13 1501422 1501922 Columbina picui 115618 CAG|GTACTGCATA...TTTTCCATGGCC/CAGTCTGTTACT...TGTAG|ATG 0 1 89.679
49389491 GT-AG 0 2.444657372425644e-05 811 rna-gnl|WGS:VYZG|COLPIC_R04105_mrna 9114874 14 1502046 1502856 Columbina picui 115618 GAG|GTGCACAGCT...TGTGCTTTGACT/TGTGCTTTGACT...TGCAG|GCA 0 1 93.235
49389492 GT-AG 0 1.000000099473604e-05 1422 rna-gnl|WGS:VYZG|COLPIC_R04105_mrna 9114874 15 1502935 1504356 Columbina picui 115618 AGG|GTAAGTAATT...TTAGTTTTGACA/TTAGTTTTGACA...TTTAG|CAA 0 1 95.49
49389493 GT-AG 0 1.000000099473604e-05 1436 rna-gnl|WGS:VYZG|COLPIC_R04105_mrna 9114874 16 1504444 1505879 Columbina picui 115618 AAG|GTAAGACACC...TTTTTTTTAATT/TTTTTTTTAATT...TGTAG|GTA 0 1 98.005

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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 34.82ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)