RnoINT0071745 @ rn6
Intron Retention
Gene
ENSRNOG00000021097 | Hpn
Description
hepsin [Source:RGD Symbol;Acc:61982]
Coordinates
chr1:89537986-89538434:-
Coord C1 exon
chr1:89538269-89538434
Coord A exon
chr1:89538177-89538268
Coord C2 exon
chr1:89537986-89538176
Length
92 bp
Sequences
Splice sites
5' ss Seq
AGAGTGAGT
5' ss Score
7.36
3' ss Seq
GTCCCTTCTGTCCCCGGCAGGAG
3' ss Score
9.79
Exon sequences
Seq C1 exon
ACTGTGGCCGCAGGAAGCTGCCGGTGGATCGCATTGTGGGGGGCCAGGACAGCAGCCTGGGAAGATGGCCATGGCAGGTCAGCCTGCGTTATGATGGGACCCACCTCTGTGGGGGATCCCTGCTGTCCGGGGACTGGGTACTGACCGCTGCACACTGCTTTCCAGA
Seq A exon
GTGAGTGTTTCCCCACAGTGCTACCTGGGGTAGGGCAGGAGAGAGGTCTGCAGAGGCCGGGCCCAGGGACTTGTCCCTTCTGTCCCCGGCAG
Seq C2 exon
GAGGAACCGGGTCCTGTCTCGGTGGCGAGTATTTGCTGGTGCTGTAGCCCGGACCTCACCTCATGCCGTGCAGCTGGGGGTTCAGGCTGTGATCTATCATGGGGGCTACCTTCCCTTTCGAGACCCTACTATCGACGAAAACAGCAATGACATTGCCCTGGTCCACCTCTCTAGCTCCCTGCCTCTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021097:ENSRNOT00000028644:5
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=0.000
Domain overlap (PFAM):
C1:
PF092725=Hepsin-SRCR=PD(6.5=12.5),PF0008921=Trypsin=PU(18.5=78.6)
A:
NA
C2:
PF0008921=Trypsin=FE(26.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCGTTATGATGGGACCCAC
R:
TAGATCACAGCCTGAACCCCC
Band lengths:
179-271
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]