MmuINT0150553 @ mm10
Intron Retention
Gene
ENSMUSG00000049313 | Sorl1
Description
sortilin-related receptor, LDLR class A repeats-containing [Source:MGI Symbol;Acc:MGI:1202296]
Coordinates
chr9:41980626-41983090:-
Coord C1 exon
chr9:41982906-41983090
Coord A exon
chr9:41980746-41982905
Coord C2 exon
chr9:41980626-41980745
Length
2160 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGT
5' ss Score
10.36
3' ss Seq
CCTTCTCTGCCTTTTTCTAGGTG
3' ss Score
12.94
Exon sequences
Seq C1 exon
TTAGCAACCTGACAGCTCATACATCCTATGAGATTTCTGCCTGGGCCAAGACAGACTTGGGAGATAGCCCACTGGCCTTTGAGCACATCTTGACCAGAGGCAGCAGTCCACCAGCTCCTAGTCTCAAAGCCAAGGCCATCAATCAGACTGCAGTGGAGTGCATCTGGACTGGCCCCAAGAATGTG
Seq A exon
GTAAGTGGACAAGAATGACCATCCCCAGGTAGTCTGAATCCTCCCCGAGCCTAAGCCCCCAGACAGCCATGGGGCCCTCTTCCCTGCTGCTCTTGCTTCTTTTCCTTACCTGGCACAAGTCACTGGCCAGGCCAGCACGGGATTGCCCCCTGGAGGGACCTGACATCCCAGCTCTTCCCCCCATATCCCTGGCCTCACTCTGCTGTCCTCAGATGCTCTCGGATATTTGTCACTGGCTAGGCCACATGTGATGGAGTGCTGCATTTATGCCCTAAGGAGCCCATCCTGAGCGGTGGGCTTGGTCACATCTTTTAGTTTACTAGCCTCTGCTCTTTTATACGGCCCACCATGTGATGCTGAGCAGAAGACGGTGACAAAGATCCCCATCCCCGCTCTGCACACCACCCCTGCCTGCAGCATGAGGAGAGTCTACCCACAGGCAGTCACTATTCTCTATTAAGAGGCTCAGCGTGGTGCTGGCCCACGTGTCCCACTGAGCAGCCCTCCAGAAGGAACAAGGTGTAGCCTTCAAAACAGTGGAGCAGCCCACAGGGCTAGGGCCTCTCTTTATGTGCCCTATGTGCTGCCATAGCCTGGCTTGTGCATTCACTGGTCACACACAGCCACCTTTCATAGGGGAGGAATGAAATGAGGCCTGCTGTGGGCAGCCATATCCTGCTCCCTCCCGTCTCATCACTGAGCATTCTGGCAGCGCTCGCGGTTGTCTTCTTTACCATCTGTGAGGGACTTTTCTTGTCTCCCAACTCCTCCCACGCTCTGGGGACTCATCCTAGCCACCCCACCTCCTGCTCCATGGGTCTGATTATAATGAGAGCATCCTCCTTCTGAGCACCGGGCCCCCCACGTAAGCCCCGAGCCTCACTTCTCCCTTTTTCCGCTATCCTGTGTGCATCTGCTTTCCGTCCTCCGGATACCCTCAGTTCTTCTCTTCCCGGCTCCTTTCAGTTAACCAATCCCTGGGAGGCCACCTTTCCTCTCTCATTACCTAAGATCCCCCTTCTCCAAACTTCCAGCTGCTGAGCAGAGTTACAGGAAGTGGACGCCCCCTGTCAGTCCCCTCTCTGTGCCCAGGACAGCTGCAGACACGCATTCTCTTTCTTCAGGCACCTGGCCTCCTGCGCATATACTCAGGGGAGGAAGTATTCTGATCCTACTTTCTCTCCTTCCCGTGTAAACACACTCCGCTGTCATTCCTTGCCTGTACACTTAGCCCAGTTCCAACTTCCCCAGTTTAAGATTCCCTCATTCTACGTGGACCCGTAGAATGTGCTTTAAGCCTGCCCTTCCTTGGTCAAGTGAAGTTCAAAGCCTCTATTGAAGCAAGACACGTTCACCCTGGAAGGGACATAGGCCTGGCCATCTCCAGCCAATGGTGTGCATCTTCAAGGTCTTCTCAAGGGTAGACAGCCTGCTATGCATCTTCAAGGGCAGACAGACTGCTGGGGCTGCAGTTCATTTTCTACATTCCAGGCAGCAGGAGTGGGAAGGGGGCAGGGGGGGGGAGATAGGCAGTCCTGCTATTAAAAGAGCCTTTTGGACCACCCTACAGGGCACTTCTACTTACATCTCATTGGTTGAGACCTTATTATCCGCTCTTCCAGCTTTCCGGGTGGTAGAGAAAGCAGGGCTCTTCTAAAGGGAAATGGGGGTGCTGGGAAGGCTGGCTGTGTCTGTCCTCCTGTGTCCTGTCCTCATGCTGCTGAGATTCCCATGCTGAGCTGACAACTTCCACAGCTTCCCACCCCACAGTGTAGCCACTCAGCTCCCCTGTCTCTGCTGTGTGATTGTATGATGTCACTGCCCCTTGACGAGCCCCTCTCTGCCCTGACACCTCATACAGGCCTCGGGACAACACCCAGCGCTCCTCATTTGCTCTTGTAGAGGAACAGGTGATTTTTGCCTTGTCTGCCCCTCCCTCCTCAAGCAGAGGCTCTCTGTGAGCAGGGGCTGCCCCAGGGTCACTTTTGCAGGTGCGCACTGGGCGTGCCCATTCCTAAGTATGCTCAGCATTCTAAAGGCAGAGGGAGTATTTCTCTGGGTACTTTACAAGCACTTCCAAGGTTTTAAGGCAGCAATTTCAAACCATGGGGACACAGACCCATCAGCTGATGGCCTTTCCCCTTCTCTGCCTTTTTCTAG
Seq C2 exon
GTGTATGGTATTTTCTATGCCACATCCTTCCTTGACCTCTACCGAAACCCTAAGAGCGTAACTACTTCGCTCCACAATAAGACAGTCATCGTCAGCAAGGATGAGCAGTATCTGTTTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000049313:ENSMUST00000060989:41
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.016 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
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