RnoINT0109225 @ rn6
Intron Retention
Gene
ENSRNOG00000004172 | Pdk2
Description
pyruvate dehydrogenase kinase 2 [Source:RGD Symbol;Acc:69428]
Coordinates
chr10:82841788-82843491:-
Coord C1 exon
chr10:82843307-82843491
Coord A exon
chr10:82841878-82843306
Coord C2 exon
chr10:82841788-82841877
Length
1429 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
GCCTTTCCCTCTGCCCACAGCCC
3' ss Score
12.13
Exon sequences
Seq C1 exon
GTTCACTGATGCCCTGGTCACCATCCGGAACCGGCACAATGACGTAGTGCCCACCATGGCACAGGGAGTGTTGGAGTACAAGGACACCTATGGTGATGACCCAGTCTCCAACCAGAACATCCAGTACTTTTTGGACCGCTTCTACCTCAGCCGCATCTCTATCCGCATGCTCATTAACCAGCACA
Seq A exon
GTGAGTTCTGGCTGCTTCGGAGAGGGCAGGGGGCCCTGGCAGGACAAGAAAGCAGGGGTCCCCACTTCAGCCACTGTGTCCAGAGGTCTGAGTGGCATTCAGGAACTGACGGGTGTGGCTTAAGTCAGGTGTGGTAGCATATACCCATAATCTTAGCACTTGGGAAGCTGAGGCAGGAGAATCGTATGTTTGAGGCCAACCTCAAAAAAAAGTAAATAAACATTTTAAAAAGTAACTGGCTCCCAAAGTAAAGTCAGAGTGCAACATTGGGTTGAAATACATTGTTTTAAATATTTGTAAGTGTAAAATATGTTGAAACAGTTTCACTATTGTATGTATTTATTTATGCACATGTGGTGGTCAGAGAACATCCTGCAGTTCATACTCTCCTTCCATCATCTGGGCCTTGGGGATTGAACTCAAGTTGTCAGGCTTGGCTGCAAGCATCTTTACCCACTGAGCCATCTTGCCAGGCATTGACACGTTATCCCCCACCCACCCACACCCACACCCAAAACATTAAAACTCCATTGTATTAAAAAACAGTTTATTGTTTGCCGTTCCTATTCAGAGTTTTCTATGCTGATTGACAAAGCATAGCCACCGTAAGTTATGTGAATTCTTTATGTTCAAAGAAAAGCAAGCTGGTGGAAGCTTCTAGTATTGTGTGAAAGCAAAGTGTACACTTAAAGCTGGGTATAGTGCTGCATGCCTTAAATCCTAACACTTGGGAGGGAGAAGCAAGCCGATGTTTGTGAGTTCAAGGCCAGTCTGGTCTACAAAACGAGTTCCAGAACAGCCAGGACTATTATACAGAGAAACCCTGTCACGAAAATACATACATATACACACACACACACATACATACACACACATACGCACATATATACACACATACATATACACACATATATACATACACATATACACACATACACACATATACACACACATATATATACACACATATACATACATACACATATACACACATATATACACATATGCACATACACGTATACATATGCACATATGCATGCACACACATATATACATATACACACATACATGTATATATACATACACACGTATACACATGTACACATATATACATACACATACATACACATATACACACACTTATATACATACACACATATACACATATACATACATACACACACACACACACACACACACACACACACACACACACTTAACAGGGTATGATGTGGGAGAAGCCTATGGAAAGACTGCTGTAGGGTGCAGAGGCTCTGGAAGGCCTGAGTTAGGGGGGGACAAGACTTGGGGAGCACAGTTAGCACAGAACATGCAGAGAACTACAGATGAGGTGAAGGGCGGGGTGTTTAGGAAGAGGGAGGACTAGCTCCTGTGAGCTAGCCAGCAGTGCCTTTCCCTCTGCCCACAG
Seq C2 exon
CCCTCATCTTTGATGGCAGCACCAACCCAGCCCACCCCAAACACATTGGCAGCATTGATCCCAACTGCAGCGTGTCTGATGTGGTGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004172:ENSRNOT00000005641:4
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=0.129
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
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTCACTGATGCCCTGGTCAC
R:
TTCACCACATCAGACACGCTG
Band lengths:
273-1702
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]