RnoINT0071743 @ rn6
Intron Retention
Gene
ENSRNOG00000021097 | Hpn
Description
hepsin [Source:RGD Symbol;Acc:61982]
Coordinates
chr1:89538703-89538966:-
Coord C1 exon
chr1:89538844-89538966
Coord A exon
chr1:89538744-89538843
Coord C2 exon
chr1:89538703-89538743
Length
100 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
CACCCCTATGTCTTCCATAGCGA
3' ss Score
8.68
Exon sequences
Seq C1 exon
GGCTCTGGCGCACTCAGAGCTGGATGTGCGAACCGCGGGCGCCAACGGCACATCGGGCTTCTTCTGCGTGGACGAGGGCGGTCTGCCTCTGGCTCAGCGGTTGCTGGATGTCATCTCTGTATG
Seq A exon
GTGAGTGGGGCAGCTGCGGGTGGCACTGGCAGGTTTCCAGATACTGTCCTAACTGGTCCCCTGGTTTGTCTCTCTGTCCTCACCCCTATGTCTTCCATAG
Seq C2 exon
CGACTGTCCTAGAGGCCGATTCCTGACTGCCACCTGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021097:ENSRNOT00000028644:3
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=FE(38.0=100)
A:
NA
C2:
PF092725=Hepsin-SRCR=FE(13.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTCTGGCGCACTCAGA
R:
TGGCAGGTGGCAGTCAGG
Band lengths:
162-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]