MmuINT0150524 @ mm10
Intron Retention
Gene
ENSMUSG00000049313 | Sorl1
Description
sortilin-related receptor, LDLR class A repeats-containing [Source:MGI Symbol;Acc:MGI:1202296]
Coordinates
chr9:42040993-42041692:-
Coord C1 exon
chr9:42041564-42041692
Coord A exon
chr9:42041079-42041563
Coord C2 exon
chr9:42040993-42041078
Length
485 bp
Sequences
Splice sites
5' ss Seq
AGGGTATGC
5' ss Score
7.47
3' ss Seq
CTTTGGTGGGGGGTTAACAGCTA
3' ss Score
1.29
Exon sequences
Seq C1 exon
TGACTTTGGCTTCAAGATGAGCGAAGATCTCTCCTTAGAGGTTTGTGTTCCAGACCCTGAGTTTTCTGGGAAGCCCTACAGCCCTCCTGTGCCTTGTCCTGTGGGTTCTTCATACAGGAGAACGAGAGG
Seq A exon
GTATGCATCTGCATCATACAGTTGTCTGGGTCAGGCTCACTAGGGCCTGTGTGGGGAAGGAGGGAACTGTGAGAACCACTCAACTCTGCCCACACCTTAAATTCTCAAACCCCAAGTTACAGAGGGCAGGTGGTTGGACAGCTTTTTAAGTTAATGGCATCTGCAATCTCCTAGTCCCCATGAGAGAACAGAGCCTACAAGCTTTTCTGCAAGGCTGAGGACATCTGAAGAAGCCTCGGCTGGGGAACATCTTCAGAGGAGTTTATAGGAGAGAGAGATTTTTAAGTGCTTCCCTGAGCAGTGCATTAAAACACCTGGGTCTGCCTGCTCTAAATAACCTCGTGCAAAACCGACTCAGAGCAACTAAACACCATCCTTCCAACTCTGTTGTCCGTGGCCAGGAATATGTGCTCAACTGGGGCTCCTCCATGACCCAGATATCCTCTCCTTGTTTCTGACGTCTTGCTTTGGTGGGGGGTTAACAG
Seq C2 exon
CTATCGGAAGATTTCTGGGGATACGTGCAGTGGAGGAGACGTTGAAGCGCGGCTGGAAGGGGAGCTGGTCCCCTGTCCCCTTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000049313:ENSMUST00000060989:15
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACTTTGGCTTCAAGATGAGCG
R:
CTGCAAGGGGACAGGGGA
Band lengths:
214-699
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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