BtaINT0118356 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016589 | PRPF40B
Description
PRP40 pre-mRNA processing factor 40 homolog B (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:25031]
Coordinates
chr5:30381632-30382248:-
Coord C1 exon
chr5:30382140-30382248
Coord A exon
chr5:30381783-30382139
Coord C2 exon
chr5:30381632-30381782
Length
357 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACA
5' ss Score
8.92
3' ss Seq
CTAACCCCATGGCTCCCTAGGAA
3' ss Score
8
Exon sequences
Seq C1 exon
GCGGGCAGAACAGACCTTTGGGGAGCTGGAGGTCTGGGCTGTGGTCCCTGAGAGGGATCGAAAAGAGGTTTATGATGATGTCCTCTTCTTCCTGGCCAAGAAAGAGAAG
Seq A exon
GTAACAGCTACTGGGCTGGATCCATCAGCCCCAGTCTCATTAAGGCCTTCCATGTCTTGGCTTCCTTGTGGACCCGCCCATTCACTTGCTGCCCCAGGGTCCCAGCTTCTTACTCAGAAGCTGGTATGGCACATCCCCAGTTCATGCTTTGGGCCTACAACTTGGTCTGGGAGGACAGGAAGGTCTCTGAGGGTGTGGTCTGTAACCTGTGCTCCTTCCCCTTTCTGGAGTCAGAAAGGCCTTGAGTCTGGCCATCCCAGAGTTCCCAAGCCACCTGCCTTTACCTAGGTTCTCTGCCCAGGCCCACTTGTGTAGCTCTGCCCTGCCCTGCCTCACCCTAACCCCATGGCTCCCTAG
Seq C2 exon
GAACAGGCCAAGCAGCTGCGGCGCCGCAACATCCAGGCCCTGAAGAGCATCCTAGATGGGATGAGTAGTGTCAACTTCCAAACAACATGGTCCCAGGCCCAGCAGTACCTCATGGATAACCCCAGCTTTGCTCAGGACCATCAGCTGCAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016589:ENSBTAT00000022067:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.027 A=NA C2=0.196
Domain overlap (PFAM):
C1:
PF0184614=FF=PD(54.0=73.0)
A:
NA
C2:
PF0184614=FF=PU(75.0=82.4)
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:
AGAACAGACCTTTGGGGAGCT
R:
TCTGCAGCTGATGGTCCTGAG
Band lengths:
254-611
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]