BtaINT0118364 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016589 | PRPF40B
Description
PRP40 pre-mRNA processing factor 40 homolog B (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:25031]
Coordinates
chr5:30374659-30375093:-
Coord C1 exon
chr5:30374998-30375093
Coord A exon
chr5:30374749-30374997
Coord C2 exon
chr5:30374659-30374748
Length
249 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
ACCCTCCCTTCTGCCTCCACCAG
3' ss Score
1.69
Exon sequences
Seq C1 exon
GTCCGTGAGCGCTTTGTGTGCGACTCAGCCTTTGAGCAGATCACCCTGGAGTCGGAGCGGATCCGGCTCTTTCGGGAGTTCCTGCAGGTACTGGAG
Seq A exon
GTGAGGCAGAGCTTCTGGTCCTCTATATCTGCCCCAGACTGGTGAACACATGAAGCTAGCTTAACAGTAGCCTCAGTAACCTCTCAACCCCACGCTCTCCTTTCCTTGACAACTAAGGAAGGGGAGGTCTCACGGTGCCCTGGAACCACCCAAGGCCCTAGCCTCAGAGGAGGCAGCAAAACCTCTGGGACACAGGGTCCTTCCTGGGGCTAACCTTGGTGCCTTCCTCACCCTCCCTTCTGCCTCCAC
Seq C2 exon
CAGACGGAATGCCAGCACCTCCACAGCAAAGGCCGGAAACACGGCAGAAAGGGCAAGAAGCACCATCGCAAGCGTTCCCACTCACCTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016589:ENSBTAT00000022067:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.933
Domain overlap (PFAM):
C1:
PF0184614=FF=PD(50.0=81.2)
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:
TCCGTGAGCGCTTTGTGTG
R:
TGAAGGTGAGTGGGAACGC
Band lengths:
185-434
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]