BtaINT0118362 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016589 | PRPF40B
Description
PRP40 pre-mRNA processing factor 40 homolog B (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:25031]
Coordinates
chr5:30374998-30375443:-
Coord C1 exon
chr5:30375306-30375443
Coord A exon
chr5:30375094-30375305
Coord C2 exon
chr5:30374998-30375093
Length
212 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGG
5' ss Score
4.94
3' ss Seq
GCAGTGCTCTCCTGTTCAAGGTC
3' ss Score
7.17
Exon sequences
Seq C1 exon
CTGCTGGAGAAAGCAGAGGCGCGCGAGAGAGAGCGGGAGAAGGAGGAGGCCCGGCGGCTGCGGCGCAGGGAAGCTGCCTTCCGAAGCATGCTGAGGCAGGCTGTGCCTGCTCTGGAGCTGGGCACGGCCTGGGAAGAG
Seq A exon
GTCAGGACTGCAGCCTGGCATCAAACACCACCCCCTCAGTCCTGAGGGCAGCAGTGCTTCTCCACCACTGGGGGCCCACCCCAGTCGTAGCACAGCTCGGGGCCAGCTTCGGCGCCCTTCCTTCCTTCCTCTGCCCCAGCCCTGCCCTGTGCTCACGGCGGCCTCCACGTTGTGCTGGGGCTGGTCTGATCAGCAGTGCTCTCCTGTTCAAG
Seq C2 exon
GTCCGTGAGCGCTTTGTGTGCGACTCAGCCTTTGAGCAGATCACCCTGGAGTCGGAGCGGATCCGGCTCTTTCGGGAGTTCCTGCAGGTACTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016589:ENSBTAT00000022067:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.217 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0184614=FF=PU(46.2=52.2)
A:
NA
C2:
PF0184614=FF=PD(50.0=81.2)
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:
GCTGGAGAAAGCAGAGGC
R:
TCCAGTACCTGCAGGAACTCC
Band lengths:
231-443
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]