BtaINT0109547 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014069 | PDK4
Description
Bos taurus pyruvate dehydrogenase kinase, isozyme 4 (PDK4), mRNA. [Source:RefSeq mRNA;Acc:NM_001101883]
Coordinates
chr4:12763320-12763764:-
Coord C1 exon
chr4:12763580-12763764
Coord A exon
chr4:12763407-12763579
Coord C2 exon
chr4:12763320-12763406
Length
173 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
TTGTTTTTATTTTTCAACAGTCC
3' ss Score
9.7
Exon sequences
Seq C1 exon
TTTTGTAGATACTCTCATCAAAGTTCGAAATAGACACCATGATGTAATTCCTACAATGGCACAAGGAATCCTAGAATATAAAGATGCCTGTACAGTTGACCCAGTCACCAATCAAAATCTTCAGTATTTCCTGGATCGATTTTACATGAATCGTATTTCTACCCGGATGCTGATGAACCAGCACA
Seq A exon
GTAAGTTAGCTCATCACGACAGTCATGATACATATAGGGATGGGTGGAGAATGTAAGCTGTACTCTAACTAGATACTTCACTACTTGGTGGGTCACATTCTTTCTCAGTGGTAGTTCTAATCATTATTATCCTGATTTTTATAATGATGCTCTTTGTTTTTATTTTTCAACAG
Seq C2 exon
TCCTTATATTTGGTGACTTACAGACAGGAAACCCAAGCCTCATTGGAAGCATTGATCCAAACTGTGATGTGGCAGCAGTGGTCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014069:ENSBTAT00000038879:4
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(37.8=100),PF0160215=Adaptin_N=PD(45.3=61.9)
A:
NA
C2:
PF104364=BCDHK_Adom3=PD(11.6=63.3)
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:
AGTTCGAAATAGACACCATGATGT
R:
ACTGCTGCCACATCACAGTTT
Band lengths:
243-416
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]