RnoINT0109212 @ rn6
Intron Retention
Gene
ENSRNOG00000001517 | Pdk1
Description
pyruvate dehydrogenase kinase 1 [Source:RGD Symbol;Acc:69427]
Coordinates
chr3:58538253-58541776:+
Coord C1 exon
chr3:58538253-58538324
Coord A exon
chr3:58538325-58541591
Coord C2 exon
chr3:58541592-58541776
Length
3267 bp
Sequences
Splice sites
5' ss Seq
TGAGTAAGT
5' ss Score
8.82
3' ss Seq
TGACCGAGAGGCTTGTTTAGATT
3' ss Score
-4.79
Exon sequences
Seq C1 exon
GTATATCCAAAGCCTTCAGGAGCTGCTTGACTTTAAGGACAAGAGTGCTGAGGATGCTAAAACTATTTATGA
Seq A exon
GTAAGTATCATTGTATGGTCCTATTCTCAGTACAACTTTATATCCTTTAAGAATAACTTACTTGGGACTGGAGAGATGGCTCAGTGGTTAAGAGCACGGGCTGCTCTTCCAGAGGTCCTGAGTTCAATTCCCAGCAACCACATGGTGGCTCACAATCATCTGTAATGGGATCTGATGCCCTCTTCTGGTGTGCCTGAAGACAGCTACAGTGTATTCACATACATAAAATAAATAAATAAGAAATAACTTACTTAATTTCATTTTATATGCATGGTGTGAGGGAACTGGAGTTACAGACAGTTGCGAGCCACCATGTGGTTGCTGGGCATTGAACCCAGGTACTCTGGAAGAGCAGCCAGTGCTCTTTTTTTTTTTTTTTTTTTTTGGTTCTATTTTTCGGAGCTGGGGACCGGCAGCCAGTGCTTTAACCACTGAGCCATCTCTCCAGCCTCCAATTTTTTATTTTTTAAACACCACCACACAAATGTGGTTACCTTACTTTGCTATTGGTCTACTTTAAGGAAACTGATGAGCACTGAGGTGTCTTTTCCTGTACCACATAGTTACCGTATCCATGTACAGCGATCCACACAGGTACTGAGGACATCAAGACAGTATAAACCAGGGAGCTGGACTGGATGGATGTAAACCGTGCTACACGGCCCTCTCTATTGTAAGACAGTTCAAATGTGATGACCAGGAGAAATCTAGATGTTACCTGGATGCCTCTTGGTCTGTTAACCTGGGGAGGGCAGGCCAGTTGCAGACGGATAGACAGTCACCTGTGCCTCACTGCTCATTCGTTTGTGCATATGCTGCCTGGATAGTCGGAAGTTCTCTAGTTTTAAACAAAAGTTTGCTGGGCAGTAGTGGTGTATGCTTTTAATCCCAGCACTTTGGGAGGCAGAGGCAGGAGGATCTCTACAAGTCTGAGGCTAGCCTGGTTTATAGAGTGAATTCCAAAAGACAGCCAAGGCTGTAACAGAGAAGCCCTGTCTTTAAAAACAAAAACAAAAATAAAAAGTTCACAAGTCTGGATTTTTCATGTAAGGTCTCTAATTTTGAAATAGCAACTGCTTATTCTCCTTTTGTTATATAGAAGGGGTATAAAAAAAATCTCTGGTTTCTATGGTCTGCGATTTATAAGATAATATAAATCCTGCACCCAATTTCATAATATGCCAGAGTTGATAAACCCAATTAATTACTTAGGGAGTTATCTGCTTGTAATGAGTCTTGTTCAGAATGTAAAGACCACTGCTGTCAGAAACTGACTTTCTTTTTTTTTTTTTTTTAAGGAGGAGGTGCTATTTTTGTTTCGGTTTTTAAAGGGAATGTCAGTACTGCACTTTTCAAACATGGTTTTGGTTCGAAAGTAATTCATCAGATGTTCACTCCCTAGGTGAGTGATATCATTTAGTTGTTTAAAGCAACTCTACTGAGAGAGTGCATTTATTTATACACAAAGAGGGTTCATAGCTTGGGGTCTTGTAGCTAGTAATAGGCCTAGGAAGACTGCAAGAGGTAAACTGTAGAATATTCTATGACTGCTACTGTAGAACCCTTTGAAAACCGTCGTCACGAGAGCTGAGCCTAGGATATAAAGTGAGTTGGGCCGAGTTCTATGTTCCTTTAAAAATTCATGCCTATGCAGGCTCCTGTGTGTTTGTGTGGAAGCTTGAGGACAGCCTTGGGTATCAGCCTCTGGAATGTATGCCATCTACCTACTTAGAGACCGGCTCTCTTGCCTTAGCAGGTCAGTTAGACTAGACTGGCCAGTGAACTCAGTGGTCCTATCTGTTTCTCCAGCACTGAGGTTACAGATGTGTGCCACTACACTTGACATGGTGAGCTTGTGCAGGCAGAACTCAGGTCATTATGCGGTGGGACAAGCACTTTAGCAACTGCTCTGTCTCCCCAAACCAGCTTTTGTTTTCTGAGATAGGGTTTCCCATGTGGCCCAGGCTTTCGTGGAAACCACTGTGTGGTCCAGTCTGGCTTCTGGTCCACAGTGAGTTGCCTGCTTCTGCCTCTGCCTGGCATTACAGGTGAGTCACTGTGCCCTGCTCAACGAGTTTCGTTCTAAAGAGAGGAACAGGGAGGTAAGTGAGGAGAGGACTGGGATATTGGGGTGTTTTTGAAAAAAAAAATTAAAATTATATTTTGTCTTAATGGCTTGGTGTTGAAGTTTATTCCCAAGTAAGAATCCCAAAAGCGGGGAAATCACTGGAGCTAATGGCAGTCAAGCTGGTGCTTGAGGAAAGCGCTCTTTGAGAAGCGTGAATCCTGATGACTGGTCAGGAGATAGGCTTGCTGCGTGCATCACAATGGAGACTTCTGTCTGTTTTCTTATTCCCCAAATTGACAAAAGCAAGAAGGCAATATGAATTGAAAAATCTCTTTTAATCCAATAGTTTTCTTTTTCTCATCCACTTCGGTTTTTTTGTTTGTTTGTTTGTTTTGTTTTGTTTTTTGTTTTTTGTGTTTAGTTGGTTTTTTGTTGTTGTTGTTTTTTGTTGTTGTTTTGTTGGTTTTGTTGTTGTTGTTGTTGTTGTTGTTGTTTGCTTTGTTTTTTTTGTTTTTCAAGACAGGGTTTCTCTGTGTAGCCCTGGTTATCCTGGAACTCTGTAGACCAGGCTGGCCTCAAACTCAGAGCTCCCCTGCCTCTGCCTCCCCAAGAGCTGAGATTAAAAGTGTGCACCCCCATCGCCTGCCCGGCTTCTCACCCACAATATAAATTCAGGGCGAATGAAATCAAGAATTCTTCTTTCGATTTTCTATTCCGAGCGGCTTCTTTTCTCTGAGCTCTAGGGAGGAGATCCACAGCCAACTTTCTTGGCTTGATTCTCAGCTTGATTCCTTAGGGGGTGTTTCCCTAGAAACAAGGAACTTTTCTTAGGCGGTGTGGTGCGTCTCTGGAATGCAGTCCTCGTTAGCGAGCCTCAGATGCTTTGGTGATGCTGGATAAGGGGACTCCACACTGTAGTATGGCTTAGGTAATACTGGATAAGGGAAACTCACGCCGTCCACAGTAGTATGTAGTGTTACAGGAAGCCAAAAATTAGGTAAGTTTTATTTTTTGGGATCCTTGTACCTTGTGGGTTGTGTGTATCTTACGAGTTGAAATGAATTTAAACAAGCGTGGGAAAGCCTTCGGTGACTCTCCTTTCTCTGAAGGAGGAGGGCTTTCTGTGGCTGCAGCTTGTATCTTAGTATTGAAGTCACTTGTCAACATCTTTGGCCGTTCTGACCGAGAGGCTTGTTTAG
Seq C2 exon
ATTCACAGACACAGTGATAAGGATCAGAAACCGGCACAATGATGTCATCCCCACCATGGCCCAGGGTGTGACTGAATACAAGGAGAGCTTCGGGGTGGATCCTGTCACCAGCCAAAATGTTCAGTACTTTTTGGATCGGTTCTACATGAGTCGCATCTCAATTAGAATGCTACTCAACCAGCACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001517:ENSRNOT00000002072:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF104364=BCDHK_Adom3=FE(14.5=100)
A:
NA
C2:
PF104364=BCDHK_Adom3=FE(37.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]