Special

MmuEX6065161 @ mm10

Exon Skipping

Gene
Description
sortilin-related receptor, LDLR class A repeats-containing [Source:MGI Symbol;Acc:MGI:1202296]
Coordinates
chr9:41989354-41991745:-
Coord C1 exon
chr9:41991619-41991745
Coord A exon
chr9:41991314-41991481
Coord C2 exon
chr9:41989354-41989466
Length
168 bp
Sequences
Splice sites
3' ss Seq
GTCCTACTTGTTTTGGTCAGGGT
3' ss Score
5.5
5' ss Seq
AGGGTGTAA
5' ss Score
-4.85
Exon sequences
Seq C1 exon
ATGAGTTAACTGTATACAAAGTGCAGAATCTCCAGTGGACAGCTGATTTCTCCGGAGATGTGACTTTGACCTGGATGCGGCCAAAGAAAATGCCATCTGCTTCTTGTGTATACAATGTCTACTACAG
Seq A exon
GGTGGTTGGAGAGAGCATATGGAAGACCCTGGAAACCCACAGCAATAAAACAAGCACTGTGCTCAAGGTCCTGAAGCCAGACACCACGTACCAGGTTAAGGTCCAGGTGCACTGCCTCAACAAGGTGCACAACACCAATGACTTTGTGACCCTCAGGACTCCAGAAGG
Seq C2 exon
TGCCAGATGCCCCTCGGAATCTCCAGCTCTCCCTGAACAGTGAAGAGGAAGGTGTGATTCTCGGGCACTGGGCTCCTCCCGTCCACACCCATGGCCTCATCCGTGAGTACATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000049313-'69-63,'69-62,70-63
Average complexity
S*
Mappability confidence:
100%=100=100%
Protein Impact

Alternative protein isoforms (Ref)

No structure available
Features
Disorder rate (Iupred):
  C1=0.000 A=0.040 C2=0.105
Domain overlap (PFAM):

C1:
PF0004116=fn3=PU(46.8=86.0)
A:
PF0004116=fn3=PD(51.9=70.7)
C2:
PF0004116=fn3=PU(41.7=92.1)


Main Inclusion Isoform:


Main Skipping Isoform:
NA


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
ALTERNATIVE
Chicken
(galGal3)
ALTERNATIVE
Zebrafish
(danRer10)
HIGH PSI
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACTGTATACAAAGTGCAGAATCTCC
R:
TCACGGATGAGGCCATGGG
Band lengths:
226-394
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]


SPECIAL DATASETS

  • Ribosome-engaged transcriptomes of neuronal types
  • Neural differentiation time course
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types