RnoINT0144320 @ rn6
Intron Retention
Gene
ENSRNOG00000018434 | Stab1
Description
stabilin 1 [Source:RGD Symbol;Acc:2324745]
Coordinates
chr16:7223426-7223758:-
Coord C1 exon
chr16:7223609-7223758
Coord A exon
chr16:7223531-7223608
Coord C2 exon
chr16:7223426-7223530
Length
78 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
CGACTTGTCCTTCTCCCCAGCAT
3' ss Score
8.16
Exon sequences
Seq C1 exon
CTTGCCCCGGTGGTCCCAGAAGCCCCTGCAGTGGCCACGGTGTGTGCCTGGATGGCATAAGCGGAAGTGGGCAGTGCAATTGTCATCCGGGTTTTGCCGGGACAGCGTGTGAACTCTGTGCCCCGGGTGCCTTCGGACCCCAGTGCCAAG
Seq A exon
GTAAGCCATCTCTTCTCCGTCCCATTCTACCCTGCCCCATCTCCTTTGGCCCGTGTATCGACTTGTCCTTCTCCCCAG
Seq C2 exon
CATGCCGCTGTGCCCCACATGGGCGTTGCGATGAAGGTCTCGGGGGCTCTGGCTCCTGCTTCTGCGATGAGGGCTGGACTGGGCCACGCTGTGATGTGCAGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018434:ENSRNOT00000025394:56
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=WD(100=86.3)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(0.1=0.0)
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:
CCTGGATGGCATAAGCGGAAG
R:
CTCATCGCAGAAGCAGGAGC
Band lengths:
175-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]