HsaALTA0004829-2/3 @ hg38
Alternative 3'ss
Gene
ENSG00000100068 | LRP5L
Description
LDL receptor related protein 5 like [Source:HGNC Symbol;Acc:HGNC:25323]
Coordinates
chr22:25351714-25354812:-
Coord C1 exon
chr22:25354596-25354812
Coord A exon
chr22:25351815-25351902
Coord C2 exon
chr22:25351714-25351814
Length
88 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
GCCTGTGTGTTCACTTCCAGGAA
3' ss Score
11.33
Exon sequences
Seq C1 exon
GCGATCAGTGTCGATGAGACGAAGAGGCAGACCCTCCTGAAGGACAAGCTCCCACACATTTTCAGGTTCACCCTGCTGGGGGACTTCATCTACTGGACCGCCTGGCAGCACCACAGCATCAAGCGGGTACACAAGGTCAAGGCCAACCGGGACGTCATCATTGACCAGCTGCCCGACCTGATGGGGCTCAAAGCTGTGAACGTGGACAAGGTCGTCG
Seq A exon
GAACCAACCCTCATGCGGACAGGAATGGGGGTGCAGCCACCTGTGCTTCTTCACGCCCCACACAACCCGGTTTGGCTGCCCCATCTAG
Seq C2 exon
GGCCTGGAACTGCTGAGTGACATGAAGACCTGCATCATGCCCAAGGCCTTCTTGGTCTTCACCAGTAGAGCCGCCATCCACAGGATCTCCCTCGAGACCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000100068-17-30,17-29,17-28-2/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.632
Domain overlap (PFAM):
C1:
PF0005812=Ldl_recept_b=PD(55.9=26.0)
A:
NA
C2:
NO
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGCTGGGGGACTTCATCTA
R:
ATGTCACTCAGCAGTTCCAGG
Band lengths:
169-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains