MmuINT0150542 @ mm9
Intron Retention
Gene
ENSMUSG00000049313 | Sorl1
Description
sortilin-related receptor, LDLR class A repeats-containing [Source:MGI Symbol;Acc:MGI:1202296]
Coordinates
chr9:41804254-41808482:-
Coord C1 exon
chr9:41808327-41808482
Coord A exon
chr9:41804404-41808326
Coord C2 exon
chr9:41804254-41804403
Length
3923 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGT
5' ss Score
8.83
3' ss Seq
TAAAAATGGCATTTTCCTAGCAA
3' ss Score
2.08
Exon sequences
Seq C1 exon
ATTCACATGTTCTACCCTCCCCGACCCCCGGGCCCTCCACGTGTCTGCCCAATTACTTCCACTGCAGCAGCGGGGCCTGTGTGATGGGCACCTGGGTGTGCGACGGCTACAGGGACTGTGCAGATGGCTCTGATGAGGAGGCCTGCCCCTCTCTAG
Seq A exon
GTGAGTCCTGGCCTTGATGTGCCCAGTTGGCATTTTCTTTCCTGGAGGGGACTCTGGGAGTATTGTGTACCAAGACTGTGTGGCAACCCAAGAGAAGCATCCCAGCTTTTAAACTGCTCTGTGTGTTTCTGGCCAGAAAAGTCCCACTCCCCTGCCTGCCACCCCTGCTTCCCTTACAGTGGGGAATTACAGATGGGGTAATAAGGCAGTGTTTTGTGTGTGTACAAAACTTAGGGGAAAGAATCATTTTTATGCTTGTTGGCTGGCTGGCATTCCCTCTAAAAGAAGGGTGACCACTGCCATCTAGTGGCTGATCACAGAAACAGCGGAAAGGTCTGTACAACCTGATCTTTGAGGTCCACCTTTGAGAAGTCACCTGTCCTGTAGGCAGAACTGGGGTGAGGGGGCCGTGTCTTTCCCTGAACTGCAAGCAGTCCCAAGCTTGCTTTTTGAAAGGAGAATTGACACTTGGTTGGACTGCTTTGCACAGTCCTTTTCAGAGCCCAATCTTAGGTCTGCAGAGATCCTCTTCCTCTGTGCACACCCCAGCACTTCCCTTTTTAAAAGTCACCAGTGGCTTCTTGCTTGGAAAATCAGAGGAGGCCTTACGGTCTAGTGGTGGAAGATGCTGTGACTGCTAAACAAATATCTTAACTTAGGCAGTCATTTTTAACTGGTGGGTTGCTAATTCGTTTTTTAAATTTTGGTTTTTAAAAATCGTAAGTGTATATTCATTGTACAAGATAGTGGGTTTTATTATGATATTCCCATATATGTTTACCATGTGTCTTGGTCACAGCCACCTACATTATTTCTCAACTTGTCACCTTGCCCCTTCTCCCTGTGGTCTTGTAGAAGATCAATTTTTTTAAAAATCCCCCTTATGTGTATGTCAGCGTGTGTGTGTGTATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTACTCATACCTGTTCACATGTGTGGAGGTCAGAAGACCACCACATCTTTGGTCCTTGCATCCCATCTTGTTTGGGACAGCCAGGGTCTATTGCTGTGTATAGATGCATATGCCAATCTAGCCGACACTTGGGGACTGGGGACTCTCTGTCTTCATCTCATCCTAGGAACCCTGGGATTACTGCAAGGCAAGCACTTTATCCACTGAGCTATCCTCCCAGGCCAGGAGAGCAGTTCCCAACACCCAGCCTTTCCTCTTTCCTTCCTCTTCATTCTTCTTTTCTCCCCCTACCTCTCCCCAGCCCTCTCCTCTGCTCTCCACCGCCCCTTCTCTTCTCTTTGCTCTTCTGCCTCTCCCATTGCTCTGTTCCTATCACCTCTCTTCCTTAGTTACTTTTTAGAGTGAGGCTCTCACTGTGTATCCAGGCTAGCCTCGGAGCGTGTTGTAGCACAGCCTGCAGAGACCGTGTTGGGTGGCTCCTATGCTGCGGTGGCTGAGAACGCCGTAGGAGCATCTCGGCGTGCTTTGTTCAGGCCGTGTTCCTGTGCTTCTTACCCGTTGCTCCTGATGCTCCTGTACGGTTGTCTTTGTGAGGCTGACCACCACTATGTCTCCATGTTTCTCCTTTCTCTTCTTCTCTCTCGTGGTTAATATAGAAAGTTCCTGGGAGAGAATACGTGGAGAGAGATCTGGGGACTGACACGTTTGAAACTGTTTTTGCCCTGTCTTCAGGTTTGATTGATCTGAGCTGGATTTAGGAGACTAGCTTGTCAATTGCTTTGCTTTAGAATTGGAAGGCCTCTGCGGTTGTCCTTTGAGTAGCTTTTAGGAAAGCCATGGCCAACGTGAGCCATTTCATTTTAAGTTTTCTGCTCGCTTATCATATCTCCCGCTTGGCTCCTGTGTTCTGACTTTTTACTAGGCTGTGCTTCGATGTACATCCTTTTCCCATCTAGTGTGGAGATCCACGTGTCGGGGTTTGAGGGATCTTTCCTGGAACTGTTTAGTTAATGGAGCAAGCCTCTCTCTTCTCCTGGTGACCTTGTTGTCTGTCACTGTCTGTTGATTGGATCTCCTCATGCTCTTTTTGTTTTGTTTGTTTGTTTGTTTTGTTTTGTTTTGTTTTGTTTGAACAAAATCCCTCTGTGTAGCCCTGCAATTGGCTGTGTAGAGCAGACCGGGCTCACACTTGTGGTAATCCTCCTACCTCTGTCTCCTGAGTGTCTGGGATTTCAGGCACGAGTCACCACATCTGCATCTGCGATCCTTACTCTTGCCTTTTTGGTTTGTTTCTTTGTTTGTTTGTTTTTTGTGTTTTTTTAAAATCTTTTTTAGCTATAAAGATTTGTATCTTTTCTAACTGCTTTCTGTGACATTTGCCTCACGTCACCAGCTCTTCCTCCGAGTGTCTTCGTTTCTGTTATTCTGGATTCACTTGTTTTTCATGTTTATTATTGTTCCTTTCAGTACTGTCCCCATTTGCATGGAGAATATGTGTATGCCCACGAGCATACTAAAGACATTTGGCGTCGAAGTTTGCGTCTGTGTGTGTTTGGTGGCGAGGTGTGTATGTGTAGGATGCCTGCACAATTTGTGTGCCTGTGGGTGCGCACACAGGGGCCACAGCAGGACATTGGCATTGGGTGTCTTCTCTATCGCTTTCAGCTTCATGCTCTGAAACAGCCCTTCACTGAATCTGCTCTGCTTTGTGACAGGGGTGCTGGGTATTCAGAATCAAGTCCTCAGGGTAGTGGGTCTTAGTCACTGAGCCATCTCCTCAGCCTCCTGACATTTGTTTCCTATAAAGCTGTTTTTCCTCCAAACAATCTTTCTTAGAGCTATGTGTGTGTGTGTGTCTGTGTCTGTGTGTGTGTGTGTGTCTGTGTGTGTGTGTCTGTGTGTGTGTGTGTCTGTGTGTGTGTGTCTATGTGTGTGTGTCTGTGTGCATACTTGTATGTGTGTCTATGTGTCTGTGCATGAGTGTGCATCTGTGTGTAGGTGTGTATGCATACTTGTGTATGTATGAGTGTGTGTGTAAGTGTGTGTGTGCACACTTGTACGTGTGTATGAGTGTGTGTTCATGTATGTACACACTCCTGTGTCTGTGTATGAGTGTGTGTGCACACTTGTGTGTCTGTGTGCATGAGTGTGTATGCATGTGTGTGACTGTGTGTGCACACTTGTGTGTCTGTATATGCATGTGTGTGACTGTGTACGCACTCGTGTATGTGCACATTTGTGTGCGCGCACATGCACATGCATGCATACATGCACACGTTGCATTTTATTTTGTTTTTGAGGCTAAAGGCTTTCCTTAGATAACTCTTTATAGCTACATGTGTTTTAGAACAGGAACTAAAATGCTGAGCACTAATAGGTTCCAAGCACACTACTGAGCATGTCGGCTTTGTGCTTTGTGGCTAGCCTTTAGCTAGGAAACCCCAGGCCTTGGCAAGTTCCTTGTTTATCCATGAAGCTGTCAGTGTACTTAGGCCTCCTGCCTATACTGTAAGGTCTCATGTCAGAGCTCTCGGGAAGTGTCTTGGCTTCTCATTGACTGACTGTAAGTCAGTACCTCTGTTACCAGTAGCTTCTTCTTTCTCAGGTAAGGCTGCTCAGACAGCCCACTTTGATTCTTTACAAACCACAGTCAGCCGGGCTTCTGGCCTACTCAGATATGGGCAGTCGTCTCCTGGGGCTGGGTCCAGAGGGAGATGGTAGCAAGGAGGCTGCTCTGAAACTTCTGACCCTTTTCCGGTCGTCTCTCTCACATGATAGTTGTTGAGCCTCTGGGGGACCCTGTGATGTTGAGCTGGCTGGCTCAGAGCGTTCTCTTCCAATAGCTTCCGGTGGGATGCAGCCCCTCTTCCCTCCACACTCTCAGCACATTGAAAAGTTGAACAGTTGCTCTTATAGGCAAGCTTCCTCCTTACCAAAAAGTAATTTTAAAAATGGCATTTTCCTAG
Seq C2 exon
CAAACTCCACTGCCGCCTCCACTCCCACCCAGTTCGGGCAGTGCGACCGATTTGAGTTCGAGTGTCACCAACCAAAGAAATGTATCCCCAACTGGAAGCGCTGTGACGGCCACCAAGATTGCCAAGACGGCCAGGATGAAGCCAACTGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000049313-Sorl1:NM_011436:31
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005713=Ldl_recept_a=WD(100=69.8)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=74.5)
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: