HsaINT0156836 @ hg19
Intron Retention
Gene
ENSG00000137642 | SORL1
Description
sortilin-related receptor, L(DLR class) A repeats containing [Source:HGNC Symbol;Acc:11185]
Coordinates
chr11:121461710-121466481:+
Coord C1 exon
chr11:121461710-121461865
Coord A exon
chr11:121461866-121466331
Coord C2 exon
chr11:121466332-121466481
Length
4466 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
TTAAAAATCTTTTATTTTAGCAA
3' ss Score
6.85
Exon sequences
Seq C1 exon
ATTCACATATTCTTCCCTTCTCGACTCCTGGGCCCTCCACGTGTCTGCCCAATTACTACCGCTGCAGCAGTGGGACCTGCGTGATGGACACCTGGGTGTGCGACGGGTACCGAGATTGTGCAGATGGCTCTGACGAGGAAGCCTGCCCCTTGCTTG
Seq A exon
GTGAGTTCTGGCCCAGGTCCTCTCCTGTGGTACCTGCTATTGTGGAGAGGACCTTCTGGGGGTGTGCTCTGGGCACAATCCAACCGGGCCCCATGCCCTGCTGTCTGGGACTCTGCTGTGTGGCCAGGTTGCCTGTTACTAATGGTGTACCTCCAGGGAAGGCTGATTTCTAGCATTTTTTCCTGGATCATAGATGCATAGGAAATTGGAATGGGAGCATCTCATCCTCTATAACTGGCCTCTGACCTTCCTGCAAGATGCCAGCCACCCTGATTTCCACCCAGGCTATGGTTATGCCACCTTTGCTGCCTTCTTAGTGGGAAAGTACAAATTGGAATTAATGTGGAACTTTTTGTGTGTGTATTAAACTCTGGGGAGAGAGCCCAATTCAGCTTGCTAGTTGGCCGGCCTGTCCAACTAAAAGAAGGGTAAGCACTGCCATCTAGTGGCTAAACTCAAAGAGGCAGCTGAAGGTCTGTAGTCACCATATTGTTGGAGGTGGGGTAGAACTTGAAATCCCATTTCGTGTGTGCTCCTAACAGCAGGCGGAACAGAGGTGAGGATCCTGTGTTCTTTCCTAAGCAGGAGTCTACTTCAAACTCAGTTATAATAGGAGAACAAATAATTTTTTGCATGCTTTGCATGATCTTTTCCCTTCTTCTGTGAGCATGTTCTTTCCATTGCTTCCTTGTTTAAAAACATCAAAATCCCAAACTTTAGTGAACCTAAAGCATGTAGGGATCTCCTGGGTTCCACCCAGAAATTCTGATTCTATGTTTTTTATAAAACATTATAAAAATGATGTTTTTACTAGGGTGGTCTTTTTGCCATATTGAGTTTCCTCTTGTTCTCCTGTCTAGAAGATCAATTTTTGACAATTTCTATTTTCCAGGCCCTCTGTGAGCTGATTCCTCCTTGCCTCCCTGGATTCCTTACATCAGCCAAGCTAGATTCCTGATCTTCTTCAGATAGACTTGCTTCTTTCCTGCCTGTGCACCTGCAGCAAGGTTTTGCCCTCAGCAGGAACTCCTGTACCCTCAACCTTGTCTTCCTACTTTCCTTATCACTGAAACCCACCATCCATCAGTGCAAACAGAAGCATGGATTTTATAGCAAAAGAGACCTTGATATATTCATATCATCAGAACTTCTCAAAATGTGATGCAAAGACCACCCTAATGGAATCGCCTGGGGTGTTTATAAAAAAATGTAGAATCAGAATTTCTGGGTGGAGCCCAGGAGATCCCCATATGATTCTTAGGTTCACAAAAGTTTGGGATTTCTGCTTTGAACAAGTAGGGTATTATTCTCCTTTCAAGCTCCACCTCTGTGGCGCTTTCACTGATTCCTTTAAATGATTTCCATCTCTTTTCCAGTCTCATTAAACTTACCCATTGACCTTTTGATTCTTAACTATGATCTGCCATATATTGCTTCCTAATTATTTCATGCGTGTTGATCTTTGCTTCCATAGCCATTGTGTGGACTTCCTGTTTGGGAATCATGCTGTCTACTACTTTGAGTCCTGCTCTGTGTCTCCTACAATAATAGGCAAATAGTCAGTATCCCCTAAAATGCTTCTCAAATTAAAATGAATTGTAAAAGAGAAAACAAAACTTTGTGTCTGTCCTTTCTCCTCAAGGCCTACATATTTATTGAATAACTTGATTATCCTCTTCAAGTTGTTTTTGCTTATTGAAACTCTGACCAGGACATTAATAGACTCTAGCAAATTCTGACTAATCCAGTGATCAGATCTCTGTTTATATATCCTGTTCAGCTTTTGTACTTTCTTTTTTGTGCGCAGTGCTGGGACAAATTTAAACTCATTGTTATCTGTAGCTCGTGGATCTTCTTTGTTTAGTGTAGAAGTCTTCTAACTGGCTTATTAACCTCATATTTCTCCCCCTTTCAGTTTTTCTTCTGATAAGGCCCATACTGATGAATGCTCATGTCCTCCCCAGTATTGGAGCCCTCTGATGCCTCCCTTATTGTCCAGGGCATGATTTGCCTTGGCCTGGCATTCTCCCCCTTTTTATTTTTTATCACCTGTCTCCATGTACCTTGTGTTTCTGCAGAGTGGTTCTGAGATATAGGGAAAGCCCCTTTGAAAATCCAATGAAAACTATAGAATATGCACAATATCCTGAAGTTAATAATTGCTTTTTTCATTTGTTTGCTTAGGTTGTTTTGTACCATTTGCCAATGCTTTCTGCCTTTCAGTCGCCACTCAGGATAACTTTCCACAGGTCAACATGTCCAGGGATTTATCAAGTCCAGTTTTTCTCTTGGAGATACTCCTTCTAACAACGTGGATTCTCCTTTCGGGACAGATTGTTCTCTAGTCCTGCTGTGTGCCTGTTACCCAGGGACTTTCACTGCCTCCTTGGAATTCTCTTTGCCTTTCTCCCAGTTTAGATTCCTTGTTTCCTGGATCTTGTGTGTTGCTTTTTCTTGGTTTACTCCCTTGTTTGGGTGGAGTGCATCCTTCAGTAGCCTTGTCAGGTGAATATGATGACGCAGTGGCCAAGGACACTGTGATGACAGCTCTCAGGTGTTTGTCTCTTGAATTTTGCTGCTCTGGTTTGTATTGGTTGCCCTGTATACCTGGGGCACAACTGCCTTTTAGGACGTTGCACCATCATCATCTTCAGGATTTCCTTTACCTCCATCTCCTGTTGGAACTCCTGTTTTCTGTGTCCCAGTTTTTCTCTTTTTAGTTTAATCCCATGTTTCAGTAGAGCACGTTTTCTGGAAAATGCCTGAGAAAATGTATGTGGGAGGCCTGTGTGAGGTCTTGCTTGTCTTAAAGTGTTTTAATTCTGTCTTCAGACTTAATTGATAGTTGGGCTGGGTTTGGCGTGCTAGATTGTAAGTAATTTTCCTTCAGAGTTTTGAAGGTTTTGTTCCACTGCCTTCAAGCAGCTTTTCGGAAATCCAAAAGCCATTTTGATTCTGATTTTTTTTTTTTTGTATGTAACCTGTTTTTAATCCTCTAGAAGCTTGTAGAATCTTCCCTTTGGCACCAGTGTTTTAAAATTTCACAATGATGTGCTTTGCTCTGAGACCCTTTCCATCCAACATAGCGGACACTTGCATGCTTTTTGATATGGAAGTTTATATATTTTAGTTCAAGGAATTTTTCTTGAAGTTTTTATTAATGATATTTCCCTCTCTGTTTTCTCTTATTTCCTGGAACTCTTGTCATTCATATATTGTCTCCTGATCTGGTCTTCTTCCTTATTTTTTTGTTTAATCTTTTATAGTTTTGAAAATTCCCTTCCCCCACCCCCCCAATTTTCTAGGAGATTTACTCAACTTTATATTTCAACTCTTTGCTGAGTTTTTCATCTTTGTTGTCATGGTTTTAACTTTAAGAGCTTCTCCATTTTTACCACTGTCCCTTTTTATGGTATCCTGTTTTCTTTTTTTCTTGGATAAATAATATATTCTTTCTTTCTGAACGTATTAAGGATATTTGTTTTTGAAGTTTTCTTCTTGCAAAGCCTCTATTTCCTCCAAATGGCCTTTTTGGGGGTTAGGGCTCTGTTTGGCTTTCTGCCTTTCATGTCAAAGCCTTTTCTCAGATAGTTCTTGGTTGCTGCTTGTATTTAAGGCTGGGGACTAAAGTGCTGGTAAGTAATTCTGAGCACATGGGTGGGCTTGTCAACTTCGAGGTTCATGGCTGGGAACCATGGGGGAACTCTGAATCTTGGTTACTTCAGGGTTAGTCTCTGAAGCTGGTCATTTTCCCCAGAGAAGATTATTAGATCTCCTGCCTAGACAATAATTACCTTATTGCTAGGATCCTCGGAGAAGAGGACTGGGACTTCCATATGTAGGTTTAATCCCCCTTTTATCAGTAGGATATACTTGCTGTCAACTACGCCTATCTAAACAACTCTCTGTTTTTACTTTCTCCAAATAACAACCCTCCATTCTTCTATTGGGGTGACGTATGGGTTGGTTGCCTCGTGGGACTGATAGGAGGGGATATAAGGAATGTAGCTGCGTCTTAAACATCATTCAGTCAGTTCCCTTATTTTAACTCCTTCTTCACTTCCAGTTAGATGCCAGTTTCTGAACTTTTGGAGGACTGTGTGTTGTTGATCTGATTGGTTCTGAGCTTTCTCCTGTGACGGCTTAGGGTAGGACGCAGCCTTCGCTGGCCTCTTTAGTCACATACCGCTATCTGTCTTCTTTCCAGCTCCCAAATCTCATTATCCATGTCCTCGTGGATTTAGGTCTTTGAAAACAATCTCTTGACTGTGGCTTTAGTGGGATCCTGTGGGGAAGCAACATTAGATGTCTGTATCTACTCTGCTCTCTATCCGGAACTCGCATTTGTCTTCAGGTTCCCATTGTAATTTCTAAAGCACCGTAATCTCCTAGCATATTGATTGGTTGCTGTTATTGGCCAGCTCCCTCAATATTAAAAAGTAAATTTTAAAAATCTTTTATTTTAG
Seq C2 exon
CAAACGTCACTGCTGCCTCCACTCCCACCCAACTTGGGCGATGTGACCGATTTGAGTTCGAATGCCACCAACCGAAGACGTGTATTCCCAACTGGAAGCGCTGTGACGGCCACCAAGATTGCCAGGATGGCCGGGACGAGGCCAATTGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000137642-SORL1:NM_003105:31
Average complexity
IR-S
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:
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
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
- Autistic and control brains
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)