RnoINT0144289 @ rn6
Intron Retention
Gene
ENSRNOG00000018434 | Stab1
Description
stabilin 1 [Source:RGD Symbol;Acc:2324745]
Coordinates
chr16:7233823-7234103:-
Coord C1 exon
chr16:7234056-7234103
Coord A exon
chr16:7233954-7234055
Coord C2 exon
chr16:7233823-7233953
Length
102 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
3' ss Seq
TGCTCCCACTCACTGTGCAGAAC
3' ss Score
8.49
Exon sequences
Seq C1 exon
GAACTGGAGGCAAATGCCCACTTCTCTGCCTTCTCCCAGTGGTTTAAG
Seq A exon
GTAGGGGTCAGGGCAGAATGCTAGGGTTGGGCTCATGTCTGCAAGGCCTTCCTGGATACAGAAATACCCATCTTCGTCTCCCTGCTCCCACTCACTGTGCAG
Seq C2 exon
AACTCGAGCATCACTCTCCCGGCTGACGGTAAACTCACAGCCCTGGTGCCCTCGGAATCTGCCATCCGCAGACTGCGCCCCGAGGACCAGGCCTTCTGGTTGCAGCCAAAGACGCTGCCAGAACTGGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018434:ENSRNOT00000025394:28
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=PU(8.2=62.5)
A:
NA
C2:
PF0246917=Fasciclin=FE(35.2=100)
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:
GCAAATGCCCACTTCTCTGCC
R:
CTGACCAGTTCTGGCAGCG
Band lengths:
170-272
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]