BtaINT0118358 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016589 | PRPF40B
Description
PRP40 pre-mRNA processing factor 40 homolog B (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:25031]
Coordinates
chr5:30380027-30380924:-
Coord C1 exon
chr5:30380791-30380924
Coord A exon
chr5:30380142-30380790
Coord C2 exon
chr5:30380027-30380141
Length
649 bp
Sequences
Splice sites
5' ss Seq
CAGGTATCT
5' ss Score
7.33
3' ss Seq
CTGGCCTCTTCCCTGCTTAGACC
3' ss Score
8.8
Exon sequences
Seq C1 exon
ACATGGACAAGGAAGATGCGCTGATCTGCTTTGAGGAGCACATCCGAGCTTTGGAGAGGGAGGAGGAGGAGGAGCGAGAGCGAGCCCGACTTCGGGAGCGGCGCCAGCAGCGCAAGAACCGGGAAGCCTTCCAG
Seq A exon
GTATCTTTGCTGCTCTCTGAATCGGAACTCAGCTCTGCCCCGGACAGTCTCTTCACCCACACGCTGCCTCCTCTCGGCCAGGCCCACTGTTCTCCCTGTGCCCAGCCTGTCCTCGCTCCATGAGGGCTGTCTGTGCCTGCAGTTTTGCTCCTGCTGTGTCCCCTCAACTCTGGGCCAGCTCCTCTAGACTAGGTGTGCGTGCCACCCGGAAACTGCCAGCAGATGGCGCCCTAAAAGCAAGGCTCAGCAGCTTGGCCAGGTTTATTTCCCTTCACTGGGGAGCCAGACAGGCAGTTAGTTCATCCCCCGTCTTGGAGGTGGCACTGGTGGTGGTGGAGGAGGGGATTAGTTGGCTATAACACATGGGGAAGTGTGGGAGTCATGGGAAGGTAATGCTGCAGGCGCTGTTTCTTTGCCTCCCAGTCCAGCCTATTCTCATGTGGAGTCTGTCCCATTCTGTTTTACAGTCTGTGTTCACATTGCTCTCTGCCTCCCCATCTGTAACTCCTCATCTCTGCCTCCCTTGCCGGCATTTCCTCAGTCTGGTTGTTCCTGCCTCTCCCTGCCGTCTCTCCTCTCCCTGCCCAGGCTTTGACTTTGCCTCCCTCCCTCTCTCACCCTCCCTGTAACTGGCCTCTTCCCTGCTTAG
Seq C2 exon
ACCTTCCTGGATGAGCTGCACGAGACAGGGCAGCTGCACTCCATGTCCACCTGGATGGAGCTGTACCCAGCGGTCAGCACTGATATCCGCTTTGCCAACATGCTGGGCCAGCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016589:ENSBTAT00000022067:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0184614=FF=PD(23.2=28.9),PF0184614=FF=PU(10.7=13.3)
A:
NA
C2:
PF0184614=FF=FE(67.9=100)
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:
ACATGGACAAGGAAGATGCGC
R:
AGCATGTTGGCAAAGCGGATA
Band lengths:
238-887
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]