RnoINT0118799 @ rn6
Intron Retention
Gene
ENSRNOG00000026040 | Prss53
Description
serine protease 53 [Source:RGD Symbol;Acc:1566127]
Coordinates
chr1:199334283-199335022:-
Coord C1 exon
chr1:199334860-199335022
Coord A exon
chr1:199334549-199334859
Coord C2 exon
chr1:199334283-199334548
Length
311 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
CCTTGCCCTTCTCCTTTCAGGAT
3' ss Score
14.28
Exon sequences
Seq C1 exon
CATGTGGGCAGCGTGGCCCTGGCCCTCCAGAGCCTCAGGAAGGCAACACGTTACCTGGCGAATGGCCCTGGCAGGCCAGTGTGAGACGACAGGGTGTACACATCTGCAGTGGCTCCTTGGTGGCAGATACCTGGGTCCTTACAGCTGCTCACTGCTTTGAAAA
Seq A exon
GTGAGTCACACTTTGGTTCGGTCTCTCAATTTGAGGGTAGATTTGTCCCTGTACCTCACAAGACTTTTTTGCCTCTAAGATAATAAGTATCATTTATGGAAAACGTGCCCTGTAGCAGACACATTACCAGCTTAACCTTAAACCTTAACCTTAGCATGGTAGATGCTTTACAGAGGAGTAAGTAGAGACTGAGGGGAGGGAACTGTGCGGAAAGCCATGTGCTCTGTCTGCTCATCTTCCCCAGCCTGTGCTCTTCTCCAGGTTGTCTCCCTTGGCACTCAGCTATTTGGGCCTTGCCCTTCTCCTTTCAG
Seq C2 exon
GATGGCCACAGCAGAACTGAGCTCCTGGTCCGTGGTCCTGGGTTCTCTCAAGCAGGAGGGGCTGAGCCCGGGGGCTGAGGAGGTGGGAGTTGCTGCCCTACAGCTGCCCAAGGCCTATAACCACTATAGCCAGGGATCAGACCTGGCTCTGCTCCAGCTTACCCACCCCATAGTTCACACAACCCTCTGCTTGCCCCAACCCACCCACCACTTCCCCTTTGGAGCTTCTTGCTGGGCCACTGGCTGGGACCAGAACACCAGTGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000026040:ENSRNOT00000035672:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.400 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(18.3=76.4)
A:
NA
C2:
PF0008921=Trypsin=FE(38.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGACAGGGTGTACACATCTGC
R:
ATCACTGGTGTTCTGGTCCCA
Band lengths:
342-653
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]