BtaINT0109544 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014069 | PDK4
Description
Bos taurus pyruvate dehydrogenase kinase, isozyme 4 (PDK4), mRNA. [Source:RefSeq mRNA;Acc:NM_001101883]
Coordinates
chr4:12754202-12758264:-
Coord C1 exon
chr4:12758151-12758264
Coord A exon
chr4:12756673-12758150
Coord C2 exon
chr4:12754202-12756672
Length
1478 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAC
5' ss Score
8.14
3' ss Seq
TTGATTTTTCCCACTTTCAGGCT
3' ss Score
10.36
Exon sequences
Seq C1 exon
GCTGGTTTTGGTTACGGCTTACCAATTTCTCGTCTCTACGCCAAGTACTTTCAAGGAGATCTAAATCTCTACTCTTTGCCAGGATACGGAACTGATGCTATCATCTACTTAAAG
Seq A exon
GTAAACTTTAAATCCAATATTAAAAAAAAATTATATATCTGAAAAGATTGCTTCTGAGTTCTATGGTCCATGGTGAATACCCCAAACTGAGTGAGCACAAATATTGACCACAAGCCATTACATTTTATGTTTGGTATGTGTAAATATACTGGTTAATATTTAGTATGGTAATATGCCAAAAAGGAAGTGAGGCAACCCTACCTGCCTCAATGAAGCAAAATGGTTTCCCAAGAAACGCAGTAGTTTCTGAGTGAGGAGATGCTCACGTGAATTTTTCAAGGCAGCTTGACATCTGTGAGAATAGCTGTAGTTTTGTTTTACTTAGGTTTGTGGGAAATGCATATACGCTAATAATGTTTCAGCCTAGAAGACAAGATACTCAAGACCTTAAGCTGACCTTATTAGAAATCCAGGGGGAGGAAAGCTGACAGCTAAGAAGCTGTCAATGGGGTGCCTGGCACTTCCTGTTTAAACTTTAAAACTCAGTACATGTTTTTTCCATTTGTGATACAGCCTCAATTTATTTGTTAAGGTCACTGTCCTGATTCTGGTTAATCATTTGCCAACTAGTTCAAATGAAAATACATTCACAGTCATTAGCAACTAAAACATTAAGCTTCCAGGCTCCTGTTTTGCTCAAGGGAAGTATTTACTACATGGTCATAGGACACCTGAAATAGTTAATGTATTCATTTCTTAAACAGTAAAAATGTCTTCAATGTATTGAAAAAGATTAATGTATTATAGATCTACAGTATCAGACTTTAATAGATCAATAGTATCAGGTTAGGACTCTCACTTTATTACATATACAGACATTTTGTCTGGAAAACCTATTTGTCTATTTTTATTCAACTCTATGAGAAGGAAATGGCAACCCACTCCAGTATTCTTGCCTGGAGAATCCCAGGGACGGAGGAGCCTGGTGGGCTGCCGTCTATGGGGTCGCACAGAGTCAGACACGACTGAAGCGACTTAGCAGCAGCAGCAGCATGACACTAGCAATATCCAGATAAGGGGCATGTGTAACTACTGAACACAAATACTGTTCCCTAATTTATTTTGTTGTTCAGTCGCTAAGTCGTGTCTGGCTCTTTGTGACCCCATGGACTGCAGCACGCCAGGCTTCCCTGTCCTTCACTTATCTCCCAGAGTTTGCTCAAACTCATATCCACTGTGTCAGTGATGCTATCTAACCATCTCATCCTCTGCCACCCTCTTCTCCTCTTGCCCTCTTAATTTATAATTGTATATATACTGTTTCAGCCCCTATAGGGTATAGATAATATTTATTTTTCAATTTTCTTTCATATAGTGCCTACCATACCATGGACTCTTGGTGTGCTTTTATTACTAAATTAATTAAAAGAGTGTATTTGAATGTTTGAATGCTTACCTCTGAGTTTCTTTTGAACAATAACTTTGGGTACAAATTACGCAACGAATAATTTCTCTGGTTTGATTTTTCCCACTTTCAG
Seq C2 exon
GCTCTGTCTTCTGAGTCCATAGAAAAACTCCCAGTCTTTAACAAATCAGCCTTCAAACATTATCAGACGAGCAGCGAGGCTGGAGACTGGTGTATCCCAAGCAAGGAACCAAAGAACCTGGCGAAGGAAAAAGTGGCTGCGTGAGGAGGGACTCGCGGACACGCTAAGGGATCAAAGTGGGTCTGTGCCAGGGCTGCTTCCTGAACGTTTGCCCATGAACTCTCATTTCCTCAAAAACAAGCAACAGCAACAAAAACTCCTTGATCCGAACACTGATGTGACCGGAAGAGAGTTCCTTTCTGTGACCCAGGCGAGCACAGTGCAGGACCGCAGGACTAACGGCTGGCCAGCTCTTTATTCTTCTAACTTAGAATAAAGCATGAGTTTGCATCAAATCCTGAAGAAGGAATAAGCCTGTTTACCATCAACAAAAAGGGGAATGAGGGAGAAGGGAAGATGAAGGCTAGCAGTTTCAACCGACTGATACTTTAGGCCACTGATTGATGTCATCAGATATTGGTATTTACGGCAGTACTTTCCTGCCACTCAAAGGATGAGGGCTTATTTTATACTGTATGATTAGAAATGTATGTAAACATGTATTTCACGCATTTCTAGACATGAAAAGTCAGTGACTAAAATAACATTTACTTTGAATGAGGACACATGAGCCAACATGCTTTATTCAAAGTTGCAGCCAAGGCCTGGGTCTATATAAAAACTTGGAAGAAAGCCCCTTCTGATAAATACAGTGCCTTTACTATGTTGCTTTTCCTGTTCACACCTCAGATAAGAGGTGAGCACTTATTGCAAGGTGCATATGTCTTGGTTGAATTTAAAATGTGCACTGAATTCTGGATGTTGGCAGTTGGAGGGGGAGAAGAATTGCCAAAGTGATAGCAAAACCTCACCTTTCTTTGAAACAGAAGTAGATTGGAAAAACCAGTATTAGGGAAAGATATCAGGCATTCAGAATCTAACTCAGTAGGAAGGGCTGTTCTCCACCCTGCAGTGGTGGAAATCCAAAGGCATCTATTTTCTAGGCTTAAAGAGATATATATTTTTATATATTTAATTATGTTCTCTACACTCCACCATTAACATCTGATAAAAATTTGTAATTAACAAATGGTTCAAGAACATTGGAATTTAAATACTTCCTGGAGTATTTTTAACAAATAGCCTGCGGGTAAGAGGTTTTCACGCTGTGGATGGGTGCTCTCATTTCTAAATTGTTGTGAATGAGAGCTAATGCGTGAAAGCCGTAAAGCGTACGCATATGGCACTTTGGGGGAGTTCAGGTGGAATGTGCAGGTGGACAGGGCAGTCTAGCACATTCCTCTCGGAGACGAAACGAAGAAACACAAGGAAAGAAGGAAGGAAAGAAGAAAGATGGAAAAGGAGGATGGAGGGAAGGCGAAGGCAAGCATCTTGCTATATTCCCCATAAATTATTTCAAGAAATGACCCATATTATCATGGATAAATTATTGACGAGGATGAATTGGTGTTTTTCAAAACAGTATGGTTTCTTTCAGTGGTTTTTTCACTCTTACAAGATAATAGGCTTTTACAAGATAATAGACTCTTTTGTGAAACCGGAATATTAAAAAAAAAAAAAAAAACCAGCTAGCATTTTCTGTTTTATAAAATAATGAGTACCATCTATATGTTGGATTTAACATTTGTGTTTAATTTTCTCATGGCCTAGTGTTGTGGTGCTTCTGGTAGTGGCCACAGAAGGCTCAAACAATTTGCTGTGGATTTCAGATTTTATCATCAGAAGTCCTGGAGGTGACTTTCTTGATTATGGGACTCTGGCTCATGCATTTATTGACTATATACAACTATTTGCAATAGAATATTCGACGTTTCAAAAATCTAAACATTTTTGCATGTAAATATTTGTGTTTACCAAAAGAATTAAAGCAGTTGATTAATAGTTACCCAAATACTGTGAACTGTCTTTAAGACACTAGAGAAAAAGAAATGTTGGTATCTCAGTAACACCAAATGTGTAAATGGAGCTCTATAAAACAGAAACAGTCCATATTGGTATTTGTGAAATCGTGGAAGAGCTTTAGGATCCTAGTGGATGGAAACTGAATGTTCAGGCCCACTTAAATTATTAATGTATAAATTGTGTTTTTGTGTCTAGGTTATGTACAAAGAAATGTGATAATTTTTATAATAAATATTTTTTATTATAATGATAGATGTAATCTTTTAAAGTGCTTTTCTTAAATTAATGGAAAATACTAAGAAGAATTTGAGGTAAAAGTTTTCCTCACTTTACATCAAACTTCATTTATATATTGGTTTTGGAAAAACTTAAAATCTTAATTTTTAAATGAAAGATAAACACCTTATAGCATTCCAGAAATTTCTGATTGTCCTTTGCTTTCTTGGTTATGCCCCAATAACACATAGAAAAATATATGTTTATCTACATGAATAAATTAAATAATCAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014069:ENSBTAT00000038879:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.021
Domain overlap (PFAM):
C1:
PF0251821=HATPase_c=FE(29.6=100)
A:
NA
C2:
PF0251821=HATPase_c=PD(0.8=2.1)
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:
GCCAGGATACGGAACTGATGC
R:
TGGGTCACAGAAAGGAACTCTCT
Band lengths:
346-1824
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]