RnoINT0144296 @ rn6
Intron Retention
Gene
ENSRNOG00000018434 | Stab1
Description
stabilin 1 [Source:RGD Symbol;Acc:2324745]
Coordinates
chr16:7232142-7232594:-
Coord C1 exon
chr16:7232463-7232594
Coord A exon
chr16:7232271-7232462
Coord C2 exon
chr16:7232142-7232270
Length
192 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGA
5' ss Score
5.11
3' ss Seq
ACCCGCTCTCCTCCTTTCAGCCT
3' ss Score
10.3
Exon sequences
Seq C1 exon
GGCATAGACATAGTGCGACATCACGTGATCCTCGGGGAGGCACTGTCCGTGGAGGTCCTGCGGAAAGGGGGACACCGCAACTCCCTCCTGGGCCCTGCCCACTGGCTGGTTTTCTACAATCATAGTGGCCAG
Seq A exon
GTTTGAAGGGCTGGGATTAGAACACCCTTTCCAGGGGCTCTGCTTTTAGGAGTCCCCTTTGAAGCTTCTTCCCCCAATCTTTGGAGCTACCCCCTACCCCCGGAGTATGTTCTTGTGTTCTTGTCTCGTTGCCTCTGAAAGTGAGGGTGGTGGAAGTGGGTAGGTAGGTTCAACCCGCTCTCCTCCTTTCAG
Seq C2 exon
CCTGAGGTGAACCACGTGCCGCTGGAGGGCCCTTTGCTGGAAGCCCCAGGCAGTGCCCTCTTTGGACTGTCGGGGATCTTGGCAGTGGGCTCTAGCCGTTGCCTGCACAGCCACGCGGAGGCTCTTCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018434:ENSRNOT00000025394:34
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=0.023
Domain overlap (PFAM):
C1:
PF0246917=Fasciclin=FE(37.4=100)
A:
NA
C2:
PF0246917=Fasciclin=PD(22.6=60.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
GGCATAGACATAGTGCGACATCA
R:
TAGAGCCCACTGCCAAGATCC
Band lengths:
226-418
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]