BtaINT0118373 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016589 | PRPF40B
Description
PRP40 pre-mRNA processing factor 40 homolog B (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:25031]
Coordinates
chr5:30383958-30384186:-
Coord C1 exon
chr5:30384066-30384186
Coord A exon
chr5:30383983-30384065
Coord C2 exon
chr5:30383958-30383982
Length
83 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
3' ss Seq
GTTATCCTTTCCTGTTGCAGCTC
3' ss Score
10.59
Exon sequences
Seq C1 exon
CTCCTGCTGTCCCAGTGTCCCTGGAAAGAGTACAAGTCGGACACAGGCAAACCTTACTACTACAACAATCAGAGTAAGGAGTCCCGCTGGACCCGGCCCAAGGACCTGGATGACCTGGAGG
Seq A exon
GTGAGGAGGGGGTGGGCCCAAGCAGAGGCTCGGGGGCGTGACTCTGTGCTACCCTCTAACCACGTTATCCTTTCCTGTTGCAG
Seq C2 exon
CTCTAGTCAAACAAGAGGCTGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016589:ENSBTAT00000022067:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.683 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0039721=WW=WD(100=73.2)
A:
NA
C2:
NO
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:
CTCCTGCTGTCCCAGTGTCC
R:
CCTGCAGCCTCTTGTTTGACT
Band lengths:
146-229
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]