RnoINT0144292 @ rn6
Intron Retention
Gene
ENSRNOG00000018434 | Stab1
Description
stabilin 1 [Source:RGD Symbol;Acc:2324745]
Coordinates
chr16:7233116-7233654:-
Coord C1 exon
chr16:7233543-7233654
Coord A exon
chr16:7233194-7233542
Coord C2 exon
chr16:7233116-7233193
Length
349 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGA
5' ss Score
7.83
3' ss Seq
TTCTGTCTGCTGCCTTCTAGAGA
3' ss Score
8.24
Exon sequences
Seq C1 exon
GGCCCACTTTCTCCAGGGTGCGTTCTCAGAGGAGGAGCTGGCCCGGTTAAGTGGGCAACAGGTGGCCACACTGAGTGCCACGACACACTGGCAGATTCACAACACCAGTGGG
Seq A exon
GTAAGAGGTGAACTCTGGACATGTGTGGGAGCTGCGCCCCACCCCCAAACCAGAGCTCCCAGGAAATAAGCCTGGAGCCCCTTGTCCAGGGCGCCCCACCCCCAAACCAGAGCTCCCAGGAAATAAGCCTGGAGCCCCTTGTCCAGGGCTGATTCTGAGGTTGTGCATAGAACACATCCGTGGTCTCATTAGAAGCTGTGTGTGCCGGCACGTATATAACTCTGCCCTTCTCCCGTGGGTGCTCGCGAGGTCTATGCCTCCGCCTGGTGGAGTCTGAGGCTGTGAGAGAGCCAGCCTCTCACCCTGTATCAGTGCCCGGCAAGCCTGAGTTCTGTCTGCTGCCTTCTAG
Seq C2 exon
AGAGTCCAGGTGCAGAATGCCACTGTGGATGTACCCGACCTCCTCGCCACCAATGGTGTCCTACATATTATTAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018434:ENSRNOT00000025394:30
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(30.3=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:
GGCCCACTTTCTCCAGGGT
R:
CTGGCTAATAATATGTAGGACACCA
Band lengths:
190-539
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]