BtaINT0109624 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016471 | PDPR
Description
pyruvate dehydrogenase phosphatase regulatory subunit [Source:HGNC Symbol;Acc:HGNC:30264]
Coordinates
chr18:1925164-1925819:-
Coord C1 exon
chr18:1925686-1925819
Coord A exon
chr18:1925313-1925685
Coord C2 exon
chr18:1925164-1925312
Length
373 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
TTCATTCCCCAACCCTACAGTCC
3' ss Score
6.36
Exon sequences
Seq C1 exon
ACCTCCTGGCCTTGGAGCAGAGCAAGACTTTCTACAAGCCAGACTGGTTTGAGATTGTGGAGTCCGAAGTCAAGTGCTGTAAGGAAGCCGTGTGTGTCATTGACATGTCCTCTTTCACAAAGTTTGAAATAACA
Seq A exon
GTAAGTATTTGAGAACCAAAGGAACAGACTTGGAAACATGCATGTTTATTATCTGCCTCTTGTTTATCATCTGTCACCTCAAAACTGATTCTGTAAGAACTCGGGTATATTTTAGTGTGTCAACTGAATTATAACATTTTCTGGAATTTGTAGCTCTTTGTTTCTGATTCTTTCTCTGCTTGTAGAGGCCCATTTGACACTAGAATCCGTAGCTAGCTTACCTGAGCTCCTTGCAGTGGGGTGAATCTGCAGATGTTGTTGCGCGAGGGCCAGCTAGTTGAATTTTCTCAGCAAGTGGCCTTGCATGTCAGGCCTCATTGCCAGCCAGAGGTTCTTACATCTGTTATCTCTGTTTCATTCCCCAACCCTACAG
Seq C2 exon
TCCACCGGGGATCAGGCATTAGAAATTCTCCAGTACCTCTTCTCCAACGACCTTGACGTGCCCGTGGGCCACATCGTGCATACCGGCATGCTCAACGAGCGTGGTGGGTACGAAAATGACTGCAGCATAGCCCGGCTGAGCAAGCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016471:ENSBTAT00000021895:12
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:
PF0157116=GCV_T=PU(5.5=26.7)
A:
NA
C2:
PF0157116=GCV_T=FE(22.5=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:
GCCTTGGAGCAGAGCAAGAC
R:
CTTGCTCAGCCGGGCTATG
Band lengths:
270-643
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development