RnoINT0144302 @ rn6
Intron Retention
Gene
ENSRNOG00000018434 | Stab1
Description
stabilin 1 [Source:RGD Symbol;Acc:2324745]
Coordinates
chr16:7244868-7245088:-
Coord C1 exon
chr16:7245003-7245088
Coord A exon
chr16:7244938-7245002
Coord C2 exon
chr16:7244868-7244937
Length
65 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
CTGACTTAATGCGTTAACAGGAG
3' ss Score
5.24
Exon sequences
Seq C1 exon
AGTGCCCCGGTGGTCCGGCGACACCATGTAGTGGCCACGGGACCTGCCTGGATGGCATAGGTGGAAATGGAACCTGTGTGTGTCAG
Seq A exon
GTAAGGGTTGGGTAGGGGTGAGGTGGGGGTGTCGGGGGAACCCCACTGACTTAATGCGTTAACAG
Seq C2 exon
GAGAACTTTAGCGGCTCAGCCTGCCAAGACTGCCGAGATCCCAACAGATTTGGGCCTGACTGCCAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018434:ENSRNOT00000025394:4
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:
PF0000822=EGF=PU(79.4=93.1)
A:
NA
C2:
PF0000822=EGF=PD(14.7=20.8)
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:
TCCGGCGACACCATGTAGT
R:
GCAGTCAGGCCCAAATCTGTT
Band lengths:
136-201
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]