BtaINT0118368 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016589 | PRPF40B
Description
PRP40 pre-mRNA processing factor 40 homolog B (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:25031]
Coordinates
chr5:30373288-30373839:-
Coord C1 exon
chr5:30373696-30373839
Coord A exon
chr5:30373604-30373695
Coord C2 exon
chr5:30373288-30373603
Length
92 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
CTGTGCCTTTGCTCCACCAGACG
3' ss Score
8.96
Exon sequences
Seq C1 exon
AATAGTCCTGAGAGCGAGACAGACCCTGAGGAGAAAGCTGCCAAGGAGAGTGATGAGAAAGAACCGGAACAGGACAAGGACAGGGACCTCCGGCGGGCAGAGCTCCCTAACCGCTCCCCAGCCTTTGGAGTCAAGAAGGAGAAG
Seq A exon
GTGAGAGAGGCAGGCCCCCGGCCCCCGCCCGGTCAGCGCGCTGCCCAGGCCCTCGGGGAAGCCGTGGGTGAGCTGTGCCTTTGCTCCACCAG
Seq C2 exon
ACGGGCTGGGACACGTCGGAAAGCGAGCTGAGTGAGGGTGAGCTGGAAAGACGGCGGCGGACGCTCTTGCAGCAGCTGGACGACCACCAGTGACCTGACACGCCACCGTGCCTCGGGTCTGCGTGAGGCTGTGGCTGAGTTCACCCTCGCTGTCTGCCCCAGACTTCTTTAGTTGGGTCTGTGTCCACTTTTTCTCAAGTATCCCCAACCCCAACCCACCATTTCTGGCATCTCCCAAGGTGCTTGTGGTGTTCAAGGGTCCCCTCAACTTCCCGGACAACTAGTGCAGTCCTTGCCCTCAGTCTCAGACCAGCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016589:ENSBTAT00000022067:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
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:
CTGAGGAGAAAGCTGCCAAGG
R:
TTTCCAGCTCACCCTCACTCA
Band lengths:
168-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]