BtaINT0109635 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016471 | PDPR
Description
pyruvate dehydrogenase phosphatase regulatory subunit [Source:HGNC Symbol;Acc:HGNC:30264]
Coordinates
chr18:1932731-1933731:-
Coord C1 exon
chr18:1933614-1933731
Coord A exon
chr18:1932881-1933613
Coord C2 exon
chr18:1932731-1932880
Length
733 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGG
5' ss Score
5.85
3' ss Seq
TTGTCATTTTTCCCTCTCAGCTG
3' ss Score
9.42
Exon sequences
Seq C1 exon
TGGGCATACGAGCTGGGTCTGTGCAGCGAGGAGCCGGTTAGCATCCCGTTACACGCCTGCGAACACTTCTACCTTCTGACTCGCCCCTGGGAGACCCCGCTGCCGAGCAGCACGCCAA
Seq A exon
GTGAGGACTGCACTTTGTTTCCACTCTTGTCTCCTCGCCCCTGTTCCGTCCTCTGTCAAGAAGGCTTTCTGCTGAGGACAGACTGCGCCCAGAAGAGTCCTTTCACTTCTTTTCTGGAGCATGTTACAGGGCGGTGGACCCCGTTCTAACTTGACTTGAATGTCTCTTTATGAAAGGATGGCCAAAGTGGGCGTACCATTTGCTTCTTTGTTTGCAAGCTAACTGTAGTCCCAGGCAGAAGTCTGAATTGTGCATATTTGGAGTGTAACCTGGAGTTGACATGCTACCCATTGTGGAGATGTCACAGTTGAGCTCTAAACTCGGGCTGTTCAGTGACTCCCAGTGCTGTAGGGAGGGTTCGCTACCACTCTGAGGTCTTCATCCCTAAAGTGGACTCTGCAGCCCCCTCTGTGAGGCTTTCATGTGGCACAGTGGCAGTTATGTGGTTTGATCTTGAGAACTTTTCTAGGTCAAAGTTTCTAGGTAAGTGATTGGTATAGGGGTAATCTGAAAAACAGTCTCCACGATAAATCTGGAAGGAGCATCCTCGCCCATACCAGGAAAAGCATTTTAGAGCTAATGATGCTTGTGTTTACTGAACGCTGCCTGGTTAATAAGGGCAATTTTAGGTGTTTTTGTTTAACTTCTTTTTCTGTCCACGTAGACAGCTGGCTTGCCTCTAAACCCTGTGTTCTCTTCTGCTCCCCACCCCCTTGTCATTTTTCCCTCTCAG
Seq C2 exon
CTGTTGTAGATGCCGATGGAAGAATTTATATTCGGAACTGGCAGGGTGGCATCCTATCAGGGGGCTTTGAGAAAAACCCAAAACCAATTTTCACTGAGGGCAAGAACCAGCTGGAGATTCAGAATCTGCAGGAAGACTGGGATCATTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016471:ENSBTAT00000021895:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.075 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0126619=DAO=FE(10.9=100)
A:
NA
C2:
PF0126619=DAO=FE(13.9=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:
GGGCATACGAGCTGGGTCT
R:
TGATCCCAGTCTTCCTGCAGA
Band lengths:
262-995
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development