BtaINT0109546 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014069 | PDK4
Description
Bos taurus pyruvate dehydrogenase kinase, isozyme 4 (PDK4), mRNA. [Source:RefSeq mRNA;Acc:NM_001101883]
Coordinates
chr4:12763580-12764578:-
Coord C1 exon
chr4:12764507-12764578
Coord A exon
chr4:12763765-12764506
Coord C2 exon
chr4:12763580-12763764
Length
742 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
ATAAATGTATTTTGGCTTAGTTT
3' ss Score
4.48
Exon sequences
Seq C1 exon
GTATATGCAGAGCCTGATGGAGTTGGTGGAATTCCATGAGAAAAGCCCAGAGGACCAAAAGGCATTATCAGA
Seq A exon
GTAAGTGTTATGCATTAGGACAAGTGTCTAAAATTCTGATTATAAACATCATATTATTTTTTAGAACTTAAAGGATAATTTATAGTATTTTCCTGAATAGTAAATAACTACCCCCTTACAAATGACAAGTTTTGGCTTGCTGGTTTTTAAAAGTAATAGAGAACAATGGCATGGAACATGATTCTGAGAATGAAATATGTAGAGGATTTTTTGGAAAAGGAACTCTATTTTTATTATAAATTTAGTATCATGATCAGATTTGTAGAAGGACTTCCTATCACATAATACTAACGCATGACAGTGTCACTGGAGGGTAAACATTTTTCTTTCAGAGTAACTGACAGTTTCTAGCTATAAGATTCTTTTCTAAATCTGACAAGAAATTTGAAGTTTCTTTCACAATGGCATTTTAGAGCCATCTCCAATCTGACTTATTTTTTTAATTATTATTTTTTAAAAGAGAAGCCTTAGTGAACAACTAGAATGAAAACACCAGTCACAGACCTGGTATTTTCACATGCAAGCTAAAAGCAAAATAAATCTATTTATGAAACTGTCTCCTCTACTGTAGTCAAAGAATCTGTAGTGAGAATTAAATAAAGCTTCATCCAAACATTTTATCATTTGATTTGTTTAGATGGGTACTTGTAAAAAGCTTTAACCTTCTTTGAAGTAATCTAAGAAATATACATTAATGAAACTTACTTGAACCTCTATTAACCATAAATGTATTTTGGCTTAG
Seq C2 exon
TTTTGTAGATACTCTCATCAAAGTTCGAAATAGACACCATGATGTAATTCCTACAATGGCACAAGGAATCCTAGAATATAAAGATGCCTGTACAGTTGACCCAGTCACCAATCAAAATCTTCAGTATTTCCTGGATCGATTTTACATGAATCGTATTTCTACCCGGATGCTGATGAACCAGCACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014069:ENSBTAT00000038879:3
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:
PF104364=BCDHK_Adom3=FE(14.6=100),PF0160215=Adaptin_N=FE(27.9=100)
A:
NA
C2:
PF104364=BCDHK_Adom3=FE(37.8=100),PF0160215=Adaptin_N=PD(45.3=61.9)
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:
ATGCAGAGCCTGATGGAGTTG
R:
TGGTTCATCAGCATCCGGGTA
Band lengths:
248-990
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]