BtaINT0109549 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014069 | PDK4
Description
Bos taurus pyruvate dehydrogenase kinase, isozyme 4 (PDK4), mRNA. [Source:RefSeq mRNA;Acc:NM_001101883]
Coordinates
chr4:12760936-12762857:-
Coord C1 exon
chr4:12762780-12762857
Coord A exon
chr4:12761013-12762779
Coord C2 exon
chr4:12760936-12761012
Length
1767 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
3' ss Seq
TGAGCTTAATTTTTTTCTAGTAA
3' ss Score
4.84
Exon sequences
Seq C1 exon
ATGCCTTTGAGTGTTCCAAGATGCTTTGTGATCAGTATTATTTAACATCTCCAGAATTAAACCTAACACAAGTGAATG
Seq A exon
GTAAGTTATAAATTCTATATATTTTAATCTGTAGAAAATTCAGTCTTCTCCCAGTATGATTTCTTCCTGTATATACAAAGCAATTTCTGTGTTCCTTTTTTCCCTTCTGAACTTGCCTAGAATTTTTACCCTTTTTTTTTTTTTTTTTGAAGCCAAGGCTCTCTTTATCTCAACTGGAAAGTTCCAATTGAGTATATTCAGTTGCTAAAGACAATTCATAAAGAAGAGTGGTTTGAGCAGATAATGTAGGATTTAGGGCAGCAGCTAAGTTCCAGTATCCTAGATCAAAGAAAGATTGCTAAGTTCAGAATGTGGGGACAAGGCAGGCAGAGTAGGAGGAACCACTTGGTAATGGAGATATATTCCTAAGGAGGTTACTTATCAGACCTGAAAACAAAAATACTTTAAATTGTACTATAAGAAAGAAGCCAGTCATAGAAGGACAAATACTATGTGCCTGCACTTATATAAGGTATCAAAAATCGTCAAGCTCACAGAAGTGGAGAGTTGAACGATGGTTGCCAGAAGCTGAAGAGGGGAAATGGGGAGCTGCTATTCAGTAGGTATACAGTTTCAGTTATGCAAGATGAATAAGTTCTAGAGATCTGCTCTACAGCACCAGTCTTATAGTTAACAACACTGTATTGCATAGTTAAATATTTAAGGTATATCTCATGTTAAATGTTTTTACCAAAAATTAAAAAAAATTTTTTCATGTAAGTATACACCATGGTTTTGGAAGCAGAACATACTTCAGAAGGGCTTCCCACACTGCCTGAAGTAATTACAGGATGAGTGCAATGCACTATTTTTATCTTATCCCATAGTTGCTTCTCAAAGCAAGACCATACACTTAAATTGGAATAACCTTCTCCTTGCCACTCAAAGAAAACATCTTTTTCAAGTAATCATTATACAGGAACAATATTTGTTGGTGGAGAGAATTTAAATCGAGTTGCTCAAATTAAGAGTACCCTAGCTCATGGATTTTGGAAAGGGAAATGGAACTGATGGCTAAACTAAAAGTAGGAGTGGACTGAAAAATATTTCTCAGCATTAACAGAAATGTTGCATAATACTTGCAGATAAACTGCTTGAACTGTTTGCTGAAATAAAGAGGAAATTGTGCCAGACCTTGTTTTCAAACTCTGCCAAGGCCTGAAACACTGAAGAATAATACTTTTATTTTTCTTTTCAGAGTATTATGAGGTTTTTGTTTCTGTTTTCTGTAGCCTCTTGGTGAAATTTAAGCATAGTTAGCCTATGGGATTTTATGTTTAATTCACAAAAATCGAGAATAACCAGATGGGTTATTTTCCCATGCATTAAAAATATGAAAATTATAGCTGCTGCTGCTAGCATCAATTTTGATGTTATTGTAGACTTTTACATTTATTTTTCTTATTTCTTAAAATGCATATAATTTTAACTCTGCAAGTGTTCAATACACAAGTTTTGAAAGTAGAAATAACTAATCCATGTAATCTAATTTAGAGCATCCTCATTTTACATTTATCTGGCTTTATGTATTTGTACAGAAATGCAAACATTAAATCATAGAGCACTAAGAAGCAACTGTAATAACATTTTGAAAATAAGCCAGCTGTGTTTACTGTTTGAAAGGGAAGGTTCTAAGGTAGGATTTTAGAGGAGGATGGGGAGTATCCCAATTCTGTTCAAATCTAAAATATTAATCAAATAGATATGACAATATATTTTAATGAAATATTTGTTTCCCAATTCTAAATGAGCTTAATTTTTTTCTAG
Seq C2 exon
TAAAATTTCCAGGCCAACCAATTCATATTGTGTATGTTCCATCTCACCTTCACCATATGCTCTTTGAATTATTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014069:ENSBTAT00000038879:6
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:
PF0251821=HATPase_c=PU(11.2=53.8)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]