BtaINT0118359 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016589 | PRPF40B
Description
PRP40 pre-mRNA processing factor 40 homolog B (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:25031]
Coordinates
chr5:30379788-30380141:-
Coord C1 exon
chr5:30380027-30380141
Coord A exon
chr5:30379880-30380026
Coord C2 exon
chr5:30379788-30379879
Length
147 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGG
5' ss Score
10.17
3' ss Seq
CCTCCCTCCCTCCCCCACAGGCT
3' ss Score
12.67
Exon sequences
Seq C1 exon
ACCTTCCTGGATGAGCTGCACGAGACAGGGCAGCTGCACTCCATGTCCACCTGGATGGAGCTGTACCCAGCGGTCAGCACTGATATCCGCTTTGCCAACATGCTGGGCCAGCCGG
Seq A exon
GTAAGGCAGCTGGGCTCTCCCTTCTCTGGCCTGGCTTCCTGCCCTGCCAGTCTCTCTGCACTCCCACTCCTTGGTCCTGTCCTCAACCCTACCCTCAGGCCTTGGGAAGCTGCCGCCGCCAGGCCCCCCTCCCTCCCTCCCCCACAG
Seq C2 exon
GCTCCACCCCTCTGGACTTGTTCAAGTTCTATGTGGAAGAGTTGAAGGCCCGATTCCATGATGAGAAGAAGATCATAAAGGACATCCTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016589:ENSBTAT00000022067:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0184614=FF=FE(67.9=100)
A:
NA
C2:
PF0184614=FF=PD(17.9=32.3)
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:
ACCTTCCTGGATGAGCTGCA
R:
GGATGTCCTTTATGATCTTCTTCTCA
Band lengths:
202-349
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]