BtaINT0109527 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008744 | PDK2
Description
Bos taurus pyruvate dehydrogenase kinase, isozyme 2 (PDK2), transcript variant 1, mRNA. [Source:RefSeq mRNA;Acc:NM_001159481]
Coordinates
chr19:37183288-37184034:-
Coord C1 exon
chr19:37183850-37184034
Coord A exon
chr19:37183378-37183849
Coord C2 exon
chr19:37183288-37183377
Length
472 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGC
5' ss Score
4.69
3' ss Seq
CCCACCGTTTCTGCCTGTAGCCC
3' ss Score
9.04
Exon sequences
Seq C1 exon
GTTCACTGACGCCCTGGTCACCATCCGGAACCGCCACAATGACGTGGTGCCCACAATGGCTCAGGGCGTGCTGGAGTACAAGGACACCTATGGCGATGACCCCGTCTCCAACCAGAACATCCAGTACTTCCTGGACCGCTTCTACCTCAGCCGCATCTCCATCCGCATGCTCATCAACCAGCACA
Seq A exon
GTGAGCGGGCGCAGGGCCATTCACTGTTCAGAGGTTTACAGAAAGCAGAACTGTGTCACTTCTTTCTGTGGTATTCATAACAATCTCATTACACTAGGAAACAGGTGGTTTTCTAGAGTTTCTTATTCTAGGAGAATTAACTATGAGTGTTGCAAAATCATAGCCAATCATTAAATACACAAGATGGTAAAAATTATTTTAATGTATAGCAAAAGAGAAGAATTAAATATAACGTAGAATGTGTGGGAACGAGACTTCTGAGAAGAAGAATGTTTCAGGCCTGCAAAGGTCCAAACTGGCCTGATTCGAGGTTATAGGGTCTGGTCAGAGGAGAGAGGGTAGGAGGGTGGGAAGTGGGTGTTAGAGTCAGAAGTGTTAGAAATAGAGGTGGGGTCTTGGAGAGCCAGGGGAAGAGGGAGGGAGCGCTGAGGCACATGGCCCCGCCAACTGTGCCCACCGTTTCTGCCTGTAG
Seq C2 exon
CCCTGCTCTTTGACGGCAGAACCAACCCTGCCCACCCCAAACACATCGGCAGCATCGACCCCAACTGCAATGTCTCTGAGGTGGTGAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008744:ENSBTAT00000034924:5
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=0.161
Domain overlap (PFAM):
C1:
PF104364=BCDHK_Adom3=FE(37.6=100)
A:
NA
C2:
PF104364=BCDHK_Adom3=PD(12.1=64.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCACTGACGCCCTGGTCA
R:
CACCACCTCAGAGACATTGCA
Band lengths:
270-742
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development