HsaALTA1044403-2/2 @ hg38
Alternative 3'ss
Gene
ENSG00000168702 | LRP1B
Description
LDL receptor related protein 1B [Source:HGNC Symbol;Acc:HGNC:6693]
Coordinates
chr2:140922965-140950402:-
Coord C1 exon
chr2:140950235-140950402
Coord A exon
chr2:140923146-140923147
Coord C2 exon
chr2:140922965-140923145
Length
2 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGT
5' ss Score
8.54
3' ss Seq
CTTCCTCATTTCAAATTAAGAGA
3' ss Score
4.06
Exon sequences
Seq C1 exon
ATGACGACTGTGGGGACGGGAGTGATGAGGTGGGCTGTGTTCACTCTTGCTTTGATAATCAGTTCAGATGTTCCAGTGGCAGATGCATCCCAGGCCACTGGGCCTGTGATGGTGACAATGACTGTGGGGACTTCAGTGATGAAGCCCAGATCAATTGTACTAAAGAAG
Seq A exon
AG
Seq C2 exon
ATTCATTCTCCTGCTGGTTGTAACGGAAATGAATTTCAGTGCCACCCTGATGGTAATTGCGTTCCTGATTTGTGGCGCTGTGATGGAGAAAAAGACTGTGAAGATGGTAGTGATGAAAAAGGTTGCAATGGTACCATACGATTGTGTGACCACAAAACCAAGTTTTCCTGTTGGAGTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000168702-35-58,35-57-2/2
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=0.000
Domain overlap (PFAM):
C1:
PF0005713=Ldl_recept_a=PD(31.6=21.1),PF0005713=Ldl_recept_a=WD(100=68.4)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=61.3),PF0005713=Ldl_recept_a=PU(35.9=22.6)
Main Skipping Isoform:
NA
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:
TGACTGTGGGGACTTCAGTGA
R:
CCATCAGGGTGGCACTGAAAT
Band lengths:
103-105
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains