Special

MmuEX6065148 @ mm10

Exon Skipping

Gene
Description
sortilin-related receptor, LDLR class A repeats-containing [Source:MGI Symbol;Acc:MGI:1202296]
Coordinates
chr9:42030879-42033656:-
Coord C1 exon
chr9:42033565-42033656
Coord A exon
chr9:42031669-42031915
Coord C2 exon
chr9:42030879-42031017
Length
247 bp
Sequences
Splice sites
3' ss Seq
GTGGTCCCTGTATTGACCAGGGT
3' ss Score
5.76
5' ss Seq
AAGGCGAGT
5' ss Score
2.72
Exon sequences
Seq C1 exon
GTAGCTAATCCAGATGGTGACTTCCGACTGACAATCGTCAATTCCTCTGTGCTTGATCGACCCAGGGCTTTAGTCCTTGTACCCCAAGAAGG
Seq A exon
GGTGATGTTCTGGACTGACTGGGGGGACCTGAAGCCTGGGATTTACCGGAGCTACATGGACGGCTCTGCTGCCTACCGCCTTGTGTCAGAGGACGTGAAGTGGCCCAATGGCATCTCTGTGGACAGCCAGTGGATCTACTGGACGGATGCTTACCTGGACTGTATCGAGCGCATCACTTTCAGTGGCCAGCAGCGTTCAGTCATCCTTGACAGCCTCCCACACCCCTATGCCATCGCTGTCTTTAAG
Seq C2 exon
AATGAGATCTACTGGGATGACTGGTCACAGCTCAGCATCTTCAGAGCTTCGAAGCACAGCAGATCCCAGGTGGAGATTCTAGCAAGCCAGCTCACGGGCCTCATGGACATGAAGGTTTTCTACAAGGGAAAGAATGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000049313-'44-34,'44-33,46-34
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact

ORF disruption upon sequence exclusion

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

C1:
PF0005812=Ldl_recept_b=PD(63.4=83.9),PF0005812=Ldl_recept_b=PU(0.1=0.0)
A:
PF0005812=Ldl_recept_b=WD(100=51.8),PF0005812=Ldl_recept_b=WD(100=48.2)
C2:
NO


Main Inclusion Isoform:


Main Skipping Isoform:
ENSMUST00000060989fB17278


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:
GCTAATCCAGATGGTGACTTCCG
R:
CAGCATTCTTTCCCTTGTAGAAAACC
Band lengths:
228-475
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