BtaINT0109634 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016471 | PDPR
Description
pyruvate dehydrogenase phosphatase regulatory subunit [Source:HGNC Symbol;Acc:HGNC:30264]
Coordinates
chr18:1933614-1934596:-
Coord C1 exon
chr18:1934475-1934596
Coord A exon
chr18:1933732-1934474
Coord C2 exon
chr18:1933614-1933731
Length
743 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
ATCCCTCTGTGTGTCTGTAGTGG
3' ss Score
7.83
Exon sequences
Seq C1 exon
GTGTTCAGATCTATGACCGGACAAGTATTCTTCATGTCATGGTCAAAAAAGGTCAAGTCGCGGGCGTGGAGACAGATAAAGGACAGATCCAGTGCCAGTACTTTGTCAACTGTGCTGGTCAG
Seq A exon
GTAGGTTAGTGACAAGACTGGGTCACTGACTTTCTTATTTAACTTTGTCTCCAGGATTTTGGGGTACAGAGATAAGGCTAGTTTTCTGATGGACCAAGCGGGGCTCACTGTTTCTTCTGTGGCCGGGAAAACTCGGAATCCCCTCCTCCAAACGGGAAGCCTGCCCTCGCCCCTCGCGTGGAAGCCAGGCGCCATCCCCCTCCTCCCCGGCCGAGGGGCAGCCCTGCTCAGGGAGGCCCGGAGAGTGAGTGCAGACAGCGCTCGGTCCCTGCTCCAGGCTGTGTGGTGGCTCGTGTCATCCCGCCACCCAGCAGACGAGCGTTTGGGTGCCCCTGTGTTGGGAGCGTGGGTTCCGTGTCAGGACCCTAAACCCTGCAGCTCTGAAGGCAGACTATCCCTTGCCCCCCCTCCACGGTCTTAGGGGCATCCAGGAGTACTTGCCACCACGTGGAGGTCTTCGTGGTTGGTGTTTGGGGTTCGCAGGGCCTGTCTCCCCACGGCTCCTCTTCCGAGCTGGTGGCTCTGTCTTCTCGGCTCAGAAAGCAGATTCCGTGGCTCACCCAGTACAGAGTTGCTCCCCTCCAAAAATGATAGGAACTAAAGCTGGGAGTCAGCTTCCCACAGCTGATGTGGGAGCGGGAGCGCCCAGGAGCCGCTCGAAATGACACTCGTCTCAAGAGGCTGCCCTTGCTCATGCGTCTTTCTGTTCCTCTCCACCCACCCATCCCTCTGTGTGTCTGTAG
Seq C2 exon
TGGGCATACGAGCTGGGTCTGTGCAGCGAGGAGCCGGTTAGCATCCCGTTACACGCCTGCGAACACTTCTACCTTCTGACTCGCCCCTGGGAGACCCCGCTGCCGAGCAGCACGCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016471:ENSBTAT00000021895:6
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=0.075
Domain overlap (PFAM):
C1:
PF0126619=DAO=FE(11.1=100)
A:
NA
C2:
PF0126619=DAO=FE(10.9=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:
GTGTTCAGATCTATGACCGGACA
R:
GTCTCCCAGGGGCGAGTC
Band lengths:
217-960
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development