BtaINT0118363 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016589 | PRPF40B
Description
PRP40 pre-mRNA processing factor 40 homolog B (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:25031]
Coordinates
chr5:30385671-30386178:-
Coord C1 exon
chr5:30386035-30386178
Coord A exon
chr5:30385737-30386034
Coord C2 exon
chr5:30385671-30385736
Length
298 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATC
5' ss Score
6.99
3' ss Seq
TGTCTCCTTTGTATCCACAGATA
3' ss Score
11.86
Exon sequences
Seq C1 exon
ATGCCTCCTCCAGGAATCCCCCCACCTTTTCCTCCAATGGGGCTCCCTCCCATGAGTCAGAGACCACCAGCCATCCCCCCCATGCCACCTGGCATCATGCCCCCAATGCTCCCACCGATGGGGGCACCACCACCACTCACACAG
Seq A exon
GTAATCTCCCCTGCTCCAGGGCCTCAGAAAACCCTGTCATCTCAGTTGCAGGTAGAGATGAAGGTGGATATCTGAACTGAACTTGAGAGTCTGGGGAGGAAGGGAGGGAAGGTGGGGCCAGGCCCACGTGAATTTGCCTGCTGAGTGGCTAGAGGCCACTCTGAGGCTCAGCTGAGCGCCCAGAGCCCAGTGTGTACCCTTGTGAGGGTCATGGCCCCGTCAGCATCTCTCAGGACTCTGTGTGGCCTGTGCTTGCCTTCACCTTAGTAGCTGGTTTCTGTCTCCTTTGTATCCACAG
Seq C2 exon
ATACCAGGAATGGTACCTCCCATGATGCCAGGAATGCTGATGCCAGCAGTGCCTGTCACCGCAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016589:ENSBTAT00000022067:2
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=0.409
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCTCCAGGAATCCCCC
R:
GCTGCGGTGACAGGCACT
Band lengths:
205-503
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]