MmuINT0150549 @ mm10
Intron Retention
Gene
ENSMUSG00000049313 | Sorl1
Description
sortilin-related receptor, LDLR class A repeats-containing [Source:MGI Symbol;Acc:MGI:1202296]
Coordinates
chr9:41985558-41987538:-
Coord C1 exon
chr9:41987466-41987538
Coord A exon
chr9:41985641-41987465
Coord C2 exon
chr9:41985558-41985640
Length
1825 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TGACTCTTCTCTCTTTTCAGTGA
3' ss Score
11.38
Exon sequences
Seq C1 exon
GTGGCTGCGGTGACTAGTCGTGGGATAGGAAACTGGAGCGATTCTAAGTCCATCACCACCATAAAAGGAAAAG
Seq A exon
GTAAGTGATTCCAGCGCCTGCAGGTTCATACAAGAGAGAAGGAAGCCTTGGTAAGGGACCTGCACTGAGGTGGAAAGGAGCCACATAGGTTAGAAAGCTCCTCAGAGCCTCCTCTTCCCCAGCACAGACATCCTTCGGGGCCACAAAAATGTGAAGTCTTCTTGGGCAGCCATTGGGTGTATTTTTCCACGCACTGATTGACAGAAGTCATTATGCCAGGTCCCTTGTGTGAGCTTGTGCAACTTCTAACATAGGAGTCCCTTTTCACTAAGGCTGGACACAGTTTGCACACTCATTTGTGAGTTGTTAAGGCACCTCACTGATGCTTGTTCCCCCTCCTTAGGTTACACTGACAAGCTATGTCAGGGCTAGGGGTGACACATAGCCTCGGGGCTGACCCTCACTGCTCGGCACCCATGAGTTTAATCTAACTGTTGTGTGTCACTGGCCCTGGGACATACTTAAATGGCAACGCTGGGGCTAGAGCTGTACATGCCTGACTCCAAAGCCTGTGTTCTGACCCTTCCTGCTGCACACCTCCCCAGGGCTGAGCTCCCCTGGGCCTGCTGGGCTGCTCCCCATCCTGTATGTGGACCTCCTGGGGCTGAGACTTTTGCCCTTCGCGTCACTCCATCCTTGGTACCTCGTGGGAAGCAGACACTCAGTTGGAGGGTGAGGGGGTTGAAGCATCTGGGTGAAGGGCCCCAGCCCCCTCTGAGCCCGGGAGGGGAGCCCATCCTCCCGAGTGGTTTTCTCAGCATAGCTGTGGCGCCGAGGACTTCTACCCCATGGCCTGGCGGATATTAAAACCAAATGATCTCTGTGGCATGGGATGCTTTTGGGTGATTCTGCTTTCTCCCGAGTCTGAGAAGTTCTGAGACTCCCTTTGGTTACTCTAAATCCCATGGGACTGTGATGATCAGGGTAGGAAGCAGCCAGAATTAATGATGCTGGCTAATCTGTAGGCAGAATGCTGGCAGGTTATAAAGAGGCCATGCCCAATCCACTGTGTTTGAGAGCCTATTGTCTCTGTGGAAATCTGGGCCAAGGTCTACAGACTATCCAAATCTAAAAGAAGGGAGTTTGGAAGACCACCCTATTCCTGAATTCAGTAAACACAATCAAATCTGCATCTGAAAATCATCCCGAGCTGTGGCTTCCTTTATTCTCTCCCCGTGGTTTGGCCAAGTCTCAGCTCCTCGTGTGCTCTGCTAGGCTGTGTGTAGAGAGGGTAGATCTGCACTGCACCAAAGAGCATCGCCATGAAATACCTGTGACCTGGGGTCTTATGACTTTGGAAGAAAGATGAAGGACAAAGAGCATTGATGTCAGCCAGGCTCATTCCCAATGGGTGCCACAGGTTACCATGGGCACCAGGGAGCAGGCTGCCATGTGTGGTGTGCTTCTGGAGAGTTGTGACCATGGTCACCATGATTATAGTCCAAGCCAACTTTTCCATAGCACCACACGCTGTCCTTCAGAAAGGACCCAAGGGGGCTGGAACATTGTTGTTCCACATAGAGGTATCACTCACAGGGATCCTGCCTCTTTAAGAGCCAGGCTGAAGCTGGACATTGGTACAGTGACATTTATCTGCTCACCCTAATTGCCAGGCCAGCTGACTGAGTCAAGTTTGTTGTGCGTTCACCAAGCAACAGTGGAGCCTGCCTCAGTCAGGGACGTGGTGGTAAAAGAGATGGATGGTTAAAGGCAGCTGGGGTGCCCTTTATTCCCCTCCTGAAAGGTCACTTTGTCTGTTGAGATGAAAGCTGTGAAGTCCCGCCTTCCACGGTGTGGTTTCTCTCTGACTCTTCTCTCTTTTCAG
Seq C2 exon
TGATCCAAGCACCAAATATCCACATTGACAGCTACGATGAAAATTCTCTGAGCTTTACCCTGACCATGGATGGTGACATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000049313:ENSMUST00000060989:38
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.013 A=NA C2=0.108
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(14.3=48.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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