RnoINT0144276 @ rn6
Intron Retention
Gene
ENSRNOG00000018434 | Stab1
Description
stabilin 1 [Source:RGD Symbol;Acc:2324745]
Coordinates
chr16:7241043-7241357:-
Coord C1 exon
chr16:7241304-7241357
Coord A exon
chr16:7241124-7241303
Coord C2 exon
chr16:7241043-7241123
Length
180 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
ACTACTGTCCTCTGCCTCAGCTG
3' ss Score
7.34
Exon sequences
Seq C1 exon
GGCCTTTCCAAACTTCAGGAGCTGGTACGGTACCACATCTACAATCATGGCCAG
Seq A exon
GTGAGAGGATGGGTCCCATCCCCTTCATAGTATCCCCTGTTGCAAGGACTACTACAGGTTTTGATCTTCCCCGGGGACCTGATTTCCTTATCCCTTTCTCTTCACTTCTGAGAGCCACTGTGTAGCACCTGAACAAGGCGTGGCCAACGCCCAGCCTAAAACTACTGTCCTCTGCCTCAG
Seq C2 exon
CTGACAGTTGAGAAGCTCATCTCTAAGGGACGTTTCCTCACCATGGCCAACCAGGTCCTGACTGTGAATATCTCTGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018434:ENSRNOT00000025394:16
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:
PF0246917=Fasciclin=FE(13.4=100)
A:
NA
C2:
PF0246917=Fasciclin=FE(20.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCTTTCCAAACTTCAGGAGCT
R:
TCAGAGATATTCACAGTCAGGACCT
Band lengths:
130-310
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]