BtaEX0028620 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000016589 | PRPF40B
Description
PRP40 pre-mRNA processing factor 40 homolog B (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:25031]
Coordinates
chr5:30382140-30383095:-
Coord C1 exon
chr5:30383031-30383095
Coord A exon
chr5:30382349-30382513
Coord C2 exon
chr5:30382140-30382248
Length
165 bp
Sequences
Splice sites
3' ss Seq
TCCCACCCTGTCCACCCTAGTGC
3' ss Score
7.86
5' ss Seq
CCGGTCAGG
5' ss Score
4.84
Exon sequences
Seq C1 exon
GCTGTCCCCTCCAATGCTTCGTGGGAACAGGCCATGAAGATGGTGGTCACTGACCCCCGTTACAG
Seq A exon
TGCCTTGCCCAAACTGAGTGAGAAAAAGCAGGCATTCAATGCCTACAAAGCGCAGCGGGAGAAGGAGGAGAAGGAAGAGGCCCGGCTAAGAGCCAAGGAGGCCAAGCAGACCTTGCAGCATTTCCTGGAGCAGCATGAACGCATGACCTCCACTACCCGCTACCG
Seq C2 exon
GCGGGCAGAACAGACCTTTGGGGAGCTGGAGGTCTGGGCTGTGGTCCCTGAGAGGGATCGAAAAGAGGTTTATGATGATGTCCTCTTCTTCCTGGCCAAGAAAGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016589-'15-14,'15-13,16-14
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.864 A=0.893 C2=0.027
Domain overlap (PFAM):
C1:
PF0394210=DTW=FE(22.6=100),PF0184614=FF=FE(42.0=100)
A:
PF0394210=DTW=PD(55.9=92.9),PF0184614=FF=PD(30.0=26.8),PF0184614=FF=PU(44.0=39.3)
C2:
PF0184614=FF=PD(54.0=73.0)
Main Skipping 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:
GCTGTCCCCTCCAATGCTTC
R:
TCTCTTTCTTGGCCAGGAAGA
Band lengths:
172-337
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development