BtaINT0118353 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016589 | PRPF40B
Description
PRP40 pre-mRNA processing factor 40 homolog B (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:25031]
Coordinates
chr5:30383031-30383308:-
Coord C1 exon
chr5:30383179-30383308
Coord A exon
chr5:30383096-30383178
Coord C2 exon
chr5:30383031-30383095
Length
83 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCTG
5' ss Score
4.05
3' ss Seq
CCCCGCCTGCTCCATTCCAGGCT
3' ss Score
8.56
Exon sequences
Seq C1 exon
TTCTGCTGGACAGCATCAGCCACCGCAGCAAGAGGAAGAAGAATCAAAACCGGAGCCGGAGAGGTCTGGCCTCAGTTGGAGCAACCGGGAGAAGGCAAAGCAGGCCTTCAAGGAGCTGCTGAGGGACAAG
Seq A exon
GTGCTGAGGGTGGGGCTCCCAGGGTAGCCCTGGAGGGGGCTGGAGGTGGGCAGAGCCCATGATCCCCGCCTGCTCCATTCCAG
Seq C2 exon
GCTGTCCCCTCCAATGCTTCGTGGGAACAGGCCATGAAGATGGTGGTCACTGACCCCCGTTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016589:ENSBTAT00000022067:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.864
Domain overlap (PFAM):
C1:
PF0394210=DTW=PU(19.4=40.9),PF0184614=FF=PU(24.0=27.3)
A:
NA
C2:
PF0394210=DTW=FE(22.6=100),PF0184614=FF=FE(42.0=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:
CTGGACAGCATCAGCCACC
R:
CCATCTTCATGGCCTGTTCCC
Band lengths:
168-251
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]