BtaINT0109623 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016471 | PDPR
Description
pyruvate dehydrogenase phosphatase regulatory subunit [Source:HGNC Symbol;Acc:HGNC:30264]
Coordinates
chr18:1925686-1926448:-
Coord C1 exon
chr18:1926293-1926448
Coord A exon
chr18:1925820-1926292
Coord C2 exon
chr18:1925686-1925819
Length
473 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGA
5' ss Score
9.21
3' ss Seq
TGGTTTTCTCTGTCCTATAGACC
3' ss Score
9.55
Exon sequences
Seq C1 exon
CTCTGCTCTATGACCTGAAGGTTCCCCGTTGGGACTTCCAGACTGGAAGGCAGTTACGCACCTCTCCTCTCTATGACCGGCTGGACGCGCAGGGAGCCAGGTGGATGGAGAAACATGGATTCGAGAGGCCAAAGTACTTCATACCACCAGACAAGG
Seq A exon
GTAAGAAGGCACGTTCTCATATTTGTTCTTTTTGTCCTCAGAATAATAAATCTTGGTTTGGTCTGGTTTTAAATCATGGATTTTTGGCTGTGTCGGGTCTCTGTTGCCGAGCTGGGGCGCTCTCAGCTGCACCCGTGGGGGCCGCGCTCCGGTTGTGGTGCACGGGTCTCGTTGCAGAGCACAGGCTCTAGGGCGCGGGCTCCGGGAGTTGTATGCACAGGTTTAGTTGCTCCATGGCATGTGGGATCTTCCTGGGTCAGGAATCAAGCCTGTGCCCCCTTATTGACAGGCAGATTCTTAACCACCGGACCACTAGGGAAGTCCTAAACCTTATTTTTAAATCAGTATAGCTCGACTGTGTTCCTGGGAGAATAAATAATAAAAACCAATTATACTGTCCTAAGCTATCAAGGAAACTCACCAGGACAAATCCCCTCCTTTTCCTTCTTCCTTTGGTTTTCTCTGTCCTATAG
Seq C2 exon
ACCTCCTGGCCTTGGAGCAGAGCAAGACTTTCTACAAGCCAGACTGGTTTGAGATTGTGGAGTCCGAAGTCAAGTGCTGTAAGGAAGCCGTGTGTGTCATTGACATGTCCTCTTTCACAAAGTTTGAAATAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016471:ENSBTAT00000021895:11
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:
PF0157116=GCV_T=PU(5.5=26.7)
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:
CTCTGCTCTATGACCTGAAGG
R:
ATTTCAAACTTTGTGAAAGAGGACA
Band lengths:
286-759
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development