BtaINT0109629 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016471 | PDPR
Description
pyruvate dehydrogenase phosphatase regulatory subunit [Source:HGNC Symbol;Acc:HGNC:30264]
Coordinates
chr18:1910952-1913445:-
Coord C1 exon
chr18:1913263-1913445
Coord A exon
chr18:1911456-1913262
Coord C2 exon
chr18:1910952-1911455
Length
1807 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTG
5' ss Score
7.76
3' ss Seq
GCGCCGCTTCTTTTTCCTAGGGC
3' ss Score
8.76
Exon sequences
Seq C1 exon
TACGCCCTGCACGTATACAATGAAGTGATGAGCGTGGGGCAGAAATACGGAATCCGGAATGCTGGGTATTACGCTCTTCGTAGTCTCCGAATTGAGAAGTTTTTTGCCTTCTGGGGTCAGGACTTAAACACCCTCACCACACCCCTGGAATGCGGAGGAGAGTCTCGGGTGAAGTTAGACAAG
Seq A exon
GTATTGTACTCGCGTGCTGACTCCACTCCGCCCTCAGCTCTCCAGGCAGGGAGCCTGCAGGGGAACAGGTGTGCAGGGGCTGAGGCCTCAGGATGCCTGAGGGGTAAAACACTGACTAAGGAAACACGACAGATAGACAACACGTGTTTGGGGCACTGCACTCTGTTTTAGACTGAGTGCTTTCTGGGCAGTTTTTCAGAGTTGGTTATGGCGATTCATTAACCTGCCACAAACATACAAATGAGTCACATTACATTCAACTTCCTAATTTTTTTTCATTTCAAAAGTAATATATGAAAATGCTCTTTTTTTCTTTATAGGAAATATGTTTATTGTTGATCATGGCAATTCAAAAATATTCGTTAAATCACCATTTAAGAGGATAAAATTCTCTTTCCCCACTCTGAGCCCCCCCAGCCCTCCTGCCAGCTTGACCAGAAGCACAGTGTCCTGTCTCCCTGTAGAGCATCCGTGCAGAGCATGCAGAGGAGTCTCCCTTCACTGCTTTCTTAATTGTGGTGCTTGGGCCCTACACACTTGGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTATGGATAGACGCATATATGGATCTGTATGGATACGTATAGATGGATAGACGCATATATGGATCTGTGTATGGATACGTATATATGGATAGACGCATACATGGGTCTGTATGGATACGTATAGATGGATAGACGCATACATGGATCTGTGTATGGATACATATATATGGATAGACACATACATGGATCTGTGTATGGATACATATATATGGCTGAGTCCCTTCACTGTTCACCTGAAACTATCACAACATTGTTATCTGCTGTCGGTCCAGTTCACTTCAGTTGCTCAGTCATGTCTGACTCTGCGACCCCATGGACTATAGCACGCCAGGCTCCCTGTCCGTCACCAACTCTCAGAGTTTGCTCAAACTCATGTCCATTGAGTCGGTGATGCCATCCAACCATCTCATCCTCTGTCGTCCCCTTCTACTCCTGCCTTCAGTCTTTCCCAACATCAGGGTCCATTCCAGTGAGTCAGCTCTTCGCATCAGGTGGCCAAAGTATTGGAGGTTCAGCATCAGTCCTTCCAATGAATATTCAGGACTGATTTCCTTTAGGATGGACTGGTTTGAGCTCTTTGTAGTCCAAGGGACTGCAGTTGGCTATATTCCAATTAATTGGCTAATCAATTAATATATCCCAATTAATTGGAATATTATATTGGAGTTAATATTCCAAATAATTGGAATATCCCAATATATTAATTGGCTATATTCCAATATAAAATGAAATTAAAAAATTTTTTTTATTCTGCTTTTTTGTACATATGCATAAATATATATGCATACAATATATAAATGGACTTTTTGTTGAGATTATATAAAAACATTGCTTTTCTAAAACAGTTCCAACAAGCACTTTTAAGTGTAGATTTTTCTGCCTGTTTTTTTCTGTGTGGTCTCATGATTGAAATGTGTTTAGAAAACAAAACGATGTGTACCTGTGCTGTTACAAGGATCCTCTGAAGGTGTCTCGTGTTGGGAACACAGGTTTCCCGCACAGTGGGAAGCCCACATTCTCCAGCGCGTGCAGCGGGGAGGGAGGGAGGGGCGGTGCTCCGCGGTTACGCCGGGGCCTGACGGTCTGCGCCGCTTCTTTTTCCTAG
Seq C2 exon
GGCGTGGATTTCATCGGGCGCGACGCGCTGCTGCAGCAGAGGCAGAATGGGGTATACAAGCGCCTCACCATGTTCATCCTGGACGACCACGACACAGACCTGGACCTCTGGCCGTGGTGGGGGGAGCCCATTTACCGGAATGGGCGGTATGTGGGCAAGACCACCAGCAGCGCCTACGGCTACACCCTGGAGCGCCACGTGTGTCTCGGCTTCGTGCACAACTTCTCCGAGGACACAGGGGAGGAGCAGGTGGTGACAGCGGATTTCATCAACCGGGGAGAATATGAGATTGACATTGCAGGACACCGGTTCCAGGCCAAGGCCAAGCTGTACCCGGTCCCCTCCCTCCTCACCCACAAGCGCCGGAAGGAGGACGTGGAGCTAAGTGACTTGCACGGGAAGTGAGGCCGGGGGGCCTCGCTGCCACCCCTCCTTCTCACCATCATAGGGGCTTTTCTCCTCCTCCTGACCCCTCCCTCTTCTTGAGTTAAGCTTGGCCTCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016471:ENSBTAT00000021895:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0157116=GCV_T=PD(25.2=90.2)
A:
NA
C2:
PF086696=GCV_T_C=WD(100=80.7)
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:
GCCTTCTGGGGTCAGGACTTA
R:
ATGAAATCCGCTGTCACCACC
Band lengths:
347-2154
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development