HsaALTD1022128-2/2 @ hg38
Alternative 5'ss
Gene
ENSG00000137642 | SORL1
Description
sortilin related receptor 1 [Source:HGNC Symbol;Acc:HGNC:11185]
Coordinates
chr11:121452516-121470123:+
Coord C1 exon
chr11:121452516-121452616
Coord A exon
chr11:121452617-121452828
Coord C2 exon
chr11:121470007-121470123
Length
212 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACT
5' ss Score
8.63
3' ss Seq
CCTACATTGATCTCTTTCAGGTT
3' ss Score
10.41
Exon sequences
Seq C1 exon
CGCGCGGGGATGCCAGGGGGGCGAGCCGCGCGGACGAGAAGCCGCTCCGGAGGAAACGGAGCGCTGCCCTGCAGCCCGAGCCCATCAAGGTGTACGGACAG
Seq A exon
GTGAGCAGTTTTGCAACCCGCCTCCCTCCAGTTTTTTCCTCTCCCTGCACTTCCTCACCCCCGCATCCATCCGTTGCAGTCGCCTCCTAGGTGCAGGCACCACTGGGGACTTCCCGGCTTGCATTTGTTTTTTTCCTTCACGAGTACAACCGTCAGCACTTGAATCGCATTGATCTTTCCTTCTTCCTGTCGATTTAGTAAACGTATTCCAG
Seq C2 exon
GTTAGTCTGAATGATTCCCACAATCAGATGGTGGTGCACTGGGCTGGAGAGAAAAGCAACGTGATCGTGGCCTTGGCCCGAGATAGCCTGGCATTGGCGAGGCCCAAGAGCAGTGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000137642-0-2,1-2-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.189 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
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGACGAGAAGCCGCTCC
R:
ATCACTGCTCTTGGGCCTCG
Band lengths:
188-400
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains