RnoINT0109247 @ rn6
Intron Retention
Gene
ENSRNOG00000009565 | Pdk4
Description
pyruvate dehydrogenase kinase 4 [Source:RGD Symbol;Acc:69061]
Coordinates
chr4:30550550-30552533:-
Coord C1 exon
chr4:30552456-30552533
Coord A exon
chr4:30550627-30552455
Coord C2 exon
chr4:30550550-30550626
Length
1829 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGC
5' ss Score
9.26
3' ss Seq
AGCTTAATTTCTTTTCCTAGGAA
3' ss Score
8.35
Exon sequences
Seq C1 exon
ATGCCTTTGAGTGTGCAAAGATGCTCTGCGATCAGTATTATCTAACGTCGCCAGAATTAAAGCTCACACAAGTCAATG
Seq A exon
GTAAGCTAGCAGCAGCAGGGCACAAGCAAACCTATTAAAACGTAGTGCTATGGGTCTTGGTAAATACAAGGCTGACTTGGCATTCTTTTTATTCTCTTGAGCTTACTTACAATTTGTCAAAGTTCTGTTTTGTTTTTTAAGACAAACTTCTCCCTATTTGCCTCAGCTGAAAAGCTTCAATTGTGAATACCCCTTGCTTACTGTGATACTTTTGGATAGTGACATACCCAGGCTCCAATCTTTTAGGTCAAGGAAAGAAGACCATTTACTCTAGAATGTGTCAGAACATCTCCAGGCATGGCGCCTGCAATCCTAGCACTTAGGAAGTGGAGGAACTCAAGTCCTTCAACCTCCAGGCCAGCTGAACATATCGAAGACTCTGCCCCCAAAAGAAAATAGTAACAATTAGAATACAAAGAAGGATATCTTTGTATATATTCAGAAAGCAGTTGTGGATGGTCATAACCTTCTCAAGATGTTATTCATGGGACTAGAGAACCAAAATACTTCATAAATTCCCTTATAAGGAATAAGATAGACAGAATGGCAGATATTACATGATTCTGGTCATGTGAGATATAAACACAAATCATTCACAGTCACACAAGCAGAAATTACAATGGTACTTGTCAAAGGCTCAGGGGGAAGAGATAAGAAATTGCTTTTGAATAAGTATAAAGATTCAGTTGTTTAAGATGAATAAGTTCTAGAGATTTGGTGCACAACATACTTAACAGTATTGAACTATACACCTAAGAATTTTTCAAGTATACTTGCACTCATGTTGAATATTGTTACTGCAAATTTTTAAAAATGCACTGCAAATATATACCACTATTTGGAAATGGAACACACTTCAAAACTTGACCTCTATGCTGTCTGCTGCAACTAGTTCTTCACAAATGGAAGTGATTACACAATCAAGGCAAGGGACCATTTTTATCTTAATCTCTTCTATTCCGGAAGACAGTGACTTCTCAGATCAAAGCATGCTTAAATTGGAATGACTGTTCCTTTCCTTTCTGAGTATATTCTTTCCAAGTAATATATACAGTGATTCTTATTAGTGGCGAGATTGATAGTCATTGCTTTAAAGAAACTAACTCATAGACGAGAGAGAATCCTAAAATCAAAGCAGGAAGACTGACGATGATGAATCCAGAGTAAGCAGAATTGTATAATAGTGAGAAGTAAACTGCTTGAGCCATTAGAGAAAATAAAAACAGGATTGTGCCAGCCCTTCCTTGTGTTTGCTTAGTCAAACTTTCCCAAGGCCCAGGGCACCCAAGAATACTTTTAGTTTTGTTTTCAAACAGTACCATGAGGCTTTTGTTTCTGTTTTCTTCATCGTGTTGGTGAAGGTTAAAACCATTTAGCTTCTAAGATTTAATGTTCTGGTGATTTAAAACATGTCATTTAATATGTACTAAAATATGAAAATTACAGCTACTACTAATGTCATAAGCAGACTTATTCCTCCTATCTTGAAATTCATTTAGTTTTATTATTGAAATTGTATACTTTAAACATGTTGAAAATAGAGGCATTTATGTAGCTTGACTTATTTCACGACCTCACGCTTCAGCCAACTACATTCATTTGCAGGGAAATACAAACTTCAATCTTGAATACTCAGGAGCAGTTGGAACCATGTAGGACACATAAGCCAGCTGTCTTCACTATTTTAAGGGGAAATGTTCTAAGTCACAGTTTTCAGGGGAGGAAAATGGTGGCAATCCCAATCTTGTCTAGAGCGAAAACAGACTCATAGCTTCATTTCAGCAAAATAGTTGTTTCCCAATGCTAATGAGCTTAATTTCTTTTCCTAG
Seq C2 exon
GAAAATTTCCAGGCCAACCAATCCACATCGTGTACGTTCCTTCACACCTTCACCACATGCTCTTTGAACTATTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009565:ENSRNOT00000012760:6
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:
NO
A:
NA
C2:
PF0251821=HATPase_c=PU(11.2=53.8)
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]