RnoINT0109236 @ rn6
Intron Retention
Gene
ENSRNOG00000012513 | Pdk3
Description
pyruvate dehydrogenase kinase 3 [Source:RGD Symbol;Acc:1593276]
Coordinates
chrX:62870862-62872821:-
Coord C1 exon
chrX:62872637-62872821
Coord A exon
chrX:62870952-62872636
Coord C2 exon
chrX:62870862-62870951
Length
1685 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
TCTCTTTTGTGTTCATTTAGCCC
3' ss Score
8.46
Exon sequences
Seq C1 exon
CTTTCTCCACGTTTTGATAAATATCAGAAACAGACACAATGACGTTGTTCCTACAATGGCCCAAGGCGTGATTGAGTACAAGGAAAAGTTCGGGTTTGATCCATTCATTAGCAGTAACATTCAATATTTCCTGGATCGGTTTTATACCAACCGCATTTCTTTCCGCATGCTTATTAACCAGCACA
Seq A exon
GTAAGTTGGGTTGTTTTGGGTCCAGTTTTGAACAGGTAACCATATTGATTTTTCTGAAAACTTCTTTTGCTTCACTTTTAGTTTACTGACTTAGACTTTTGGCTGTAGAAATTTCATTTCTAGTTCAGTTTTTCTTAAGTGAATCCTTCCTATTACAAAAATCTGTTAGTCAATATTCTTGATTCAAAGTTGTCCTTGGAAGACATTTGTGATGCTTATATTATAGGTGGGGCCACTGGCTGCCTTTCAAAGGCTCTGCTGTTACATTTCTATGGAGTCAAGGGACTGGCTTGAATGCAGCCACATTAATTTCTCAATAATTTAAATTGTATGGGAGTATTTTTCTTTTATTCCACAGTGATAGGTAAACTCTTGATTTTTAATTAGTCCATGATGCCACACTGAGAGTTTTAGTATACTCTCCATGGTAATAGATGTGGGGTGAGGGAGAATATCTAAAATTCTTTCAGCACAACAAACTTCCTGACTGATTTCCAGTACTGTCACCTTGGTTGATTTTCTTAATTCTAAGAAAAAGCATGCACATATTTGCAGTTATCCTTGCTGAATCAGAGTGCACAAAGCATTTGTAATTCATTTGACTTATTTAGATAAGCAAATGTTATAGAACTATTAATACATACTTATAGCCAGGCAGTGGCAGCACATATCTTAATCTGAGTACTTGAGTGGCAAGAGACAGGCGAGCCCTAGGTTTGAGGCCAGCCTGGTCTAGAGAGTAAGTTTCAAAAGAGCCATGTCAACACACAGGGAAACCCTGTCTTAAAAAAAACAAAACCAAAGAACATATTTATATATATTTTTAGAAACATGTATGACAATTTATAGAAAAAAAACTAAATCCAAGCCAGCTGGTTTACTAGATAGTGGCAGTTTCCTTATCAAAGCATATTTGAGTTCACATCTGTAATGCATATGTTTTATTGTTGGTCAAACTCACGCACTTCTCGTTTCCCTATTTTTAGTAAGTTTGAACTTTATGTACTGGCACACACCAGTATTTACCATTTTTCATAATCTCAAGTCATTCCTATTTTGTTTAGGTATTTATTCTCCTTTTGTGGAGTCTAAGTTATTCCCAAGTTTTGATTTATTTAATATAAAGTATACCTATAAAATGTTGACTTGTGTCGCTTTTATTCCTTTCAGCTTCTTTAGGCTTTTATTGGGGAATAAAAATCTGCAGCTATCGTGTAGAGTAAAATGGAATATTTTTCTAAAACTATTTGCACAAATACTGTTTGTGTACACAGAATTGAAAAAGATCCTCTGTGATGGAGGCAGTGCTGCCAGTCAGGCTCCCTCGCAAATGGCCCACGCTGCATGTTGGAAATATTTAGTGATGCAATAAATGACTGCAAGGGCTGATTGAGCCCCCAGGGAGGTAACCAGCCAAGCATGGAAGTGTCTTGATCTAGTTATCATCGGCAGAGGAAGAAAGGATTGGGCCCCTGACATGCCCGTGACTGATGGGACTTAAAGTACATCCCTTCCCTCTTTTCCCTGATGTAACCCCCTCCCCCAATCAGAGTATCACATTACTCTGTCATTGTGGGTGCCAAAATGATTCTAAGAGGATCATTGTGACGGAAACTTATTTCTGTGCTTGACCATATCAGCTTGCCGTGTATCAATCCCTTTCCTTCTCTTTTGTGTTCATTTAG
Seq C2 exon
CCCTTCTGTTTGGTGGTGACACTAACCCCGCTCATCCGAAACATATAGGGAGTATCGATCCCACCTGTAATGTAGCTGATGTGGTGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012513:ENSRNOT00000017370:5
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=0.032
Domain overlap (PFAM):
C1:
PF104364=BCDHK_Adom3=FE(37.6=100)
A:
NA
C2:
PF104364=BCDHK_Adom3=PD(12.1=64.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATATCAGAAACAGACACAATGACGT
R:
TTCACCACATCAGCTACATTACAGG
Band lengths:
254-1939
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]