HsaINT0096339 @ hg38
Intron Retention
Gene
ENSG00000168702 | LRP1B
Description
LDL receptor related protein 1B [Source:HGNC Symbol;Acc:HGNC:6693]
Coordinates
chr2:140506796-140510056:-
Coord C1 exon
chr2:140509928-140510056
Coord A exon
chr2:140506919-140509927
Coord C2 exon
chr2:140506796-140506918
Length
3009 bp
Sequences
Splice sites
5' ss Seq
GCGGTATGA
5' ss Score
7.46
3' ss Seq
TTTTGTGATGCCTTTCTTAGCTC
3' ss Score
6.54
Exon sequences
Seq C1 exon
GTGCCATAACCTGTGCTGCTGACATGTTCAGCTGCCAGGGCTCTCGTGCCTGCGTGCCCCGACATTGGCTTTGTGATGGTGAAAGGGACTGTCCAGATGGAAGCGATGAGCTTTCCACAGCAGGCTGCG
Seq A exon
GTATGAACACTGGCCAGGGCTGCATGTCAAAGAAAACTGTTGCAGCATCCTTGGTTATTTGTTTTTGTAGTATTTGCCATAGCACATTTCCCATTGCTTTCCTAGTTCCTGGGCCCATAGGTAGTATTGGACTTAATCAGGTGGGATGACGGTATCACAGTAGTTCTGCAACCTCTTTAACTACTGTTCAATGTTTCAAACATGCACAGTCGGATTACCCATTTTAAAACCACTTTGATAAACACAGATTTATCATTTCACTTCTCAGCTAATGTAACTGCACTTTATGTGTACGAGTGCAGTAGGTTTGGTACTTTCTCTTTTGCGTCGTCCACCACCATCCTTCTGAAGGCTTTTAGATTGTCTGTTACAGAGACTCTGTGAATGACTTCTCTGATCCTAAATAACTACTGATCAGGAGGTCAGTAAACACCTATTAGTCCTATGGATAGGGTATTAACCCTTGGGTCATGTAAAAATAGTATGGATATAGCCGAATGAAGCTGAGGGATCAGAGGAGCACCTTCGGAGGTCAGACAATTTACTAAGTTTCTGACTCTAAGTCACCTCAGGAAATTTTCAGGGCATTACTCAACAGTAAAAATTTAGATGAATTCCTTTGCATGATCAGGAGGATAAAGGGACTGAATATTTGAATGCAGATCCCAAGGTCACATAGGGGATCCTTTGGGCTGAGCAATTTGTCAGAAATAATGCTGCGAACTCCGCTTGTTAAAATGAGTTCTGTCAGTCATCTCTCCAATGGCCTGCCTTCACATCTTTAAAGCATTGTATTTGAAGCCATAATATAAGTGTCTGTGTGTGTGTGTGTGTGTGTGTGTGTTTGTGTGTGTGTGTGTGTGTGCAGGGGTATGTACGTGAGGAATAGTTAAAGTAGAAAAGAAAAAAGAAAACTTCGAGGCAGACCTATTTGCACAGAACTCATACTATTGTTGTAGAATAATTCACTTTGATCTTGAAACTGATATGTGTGTCTGTAAAGGTCAATGAGGCCACTGAGGGCTACATAATAAAGGATTATGCATCAATTCAGGGATCCAGATGGTCCCAGTATGCTGTTGCTATTGTAGCAAGTTAACACTCTGGGAGGCATATTAACACGTTTGTACCACAAGGGTACTATTAAGTACATTCCGTTAAAATGCAGCAAATTGTACTCAAGTGATCTGAAAGTGTTAAAGCCAAATAAGTCACTGTTGCTCAGTGTTTTAAAGATTAATCCATGTATCGGAATTGGTGTAATTCACCTGAGTTATCCAAGCTGGCATACAGTTCAAATTTAAGAGGAGTTAGTAAAATCAGAGTTTTACTCTGATTACAACAGGCAATTGTTCATGCTACTTCTATGTGGCTTCTATACAGCTTTAAAAAAATCTTTGTTAAAAGTAAATTATGCCTGATTATATTTTAAAAACCCTTATGTGTTACCTACACTATGTCAATAATTTCTGAGATAAAGGGAGAGATTTATTTGTTCATGGAGCCTGGGGCAGTCTGGGGAGAGGGGGCTATAGGCAATGTGAAAGAATAATGATAATACCTGTATCTTAAGTGTTAAAGTGATGTGTATAAAATATACTATGTCAATCACAAAGAAATATTATGTAAAATATCCTACTAATATGTAAAATGCCTCAGGAAATGATTTCAAGAAAAAGTGATAATATTATCTGAGTCTTGAGGGACAAAGAAAGAGAAAGGTGTTTCATGTAGAGAAAAGTGCTTATTAAGACATGGAATTGGGAAATAGAAGGCACCTAAGTTTTTCAAGTACCCATTACATATCAATTATTGTAATTGTTGCTGTTATTTGCATTATTGAATTCCCACAATATTGTAGTGAACTGTTTTGAGGAATCTGCCAAAAATAATTATTATATAAATAGGAGTTTAAAGAGCACCTAGACATGTATTAAATACTTAAAATGAGCCAAATCTGCTTCACATACATTATCTAGCCCTTATAAGAAATGTATCAGATACATTTTATTATCCCCATTAAACAGATAAAGAAACAGATGCACCAAGAAGGTAAATTGCTTCCTTAAGGATACAAATATAAGTGCCACAGCCACTTTCTGCAAAGTCTTTCTCTTTCCAGCATTCTACAATAGCATATAGCGGATTATTGCTATTTGCAATACCCCAAACCTTGAGTCCTACATGGCATTTACCTTTTAAATATATGCAAAGATTACTGAAAATATTTAAATGAGTCTTGCAAACCTCTTATGATTCTATGCGTATGGTATTAATTTTTTCTTTCTCTGCACTAGTTATGTTCTTTTGAATTTTTGCTGAAATTTTGATCACTTGGATCAACCATTTTTTCCACTTGTTGGAACATTGCTTTCATGGATCAATATTCCTAAAGGGTCAATATTCCATTTCATTTGTGTGGTACTTACGGAGGGGCTGATGACATCAAAGATCTTACCTTTACCTAATTGGACACCCCACTCTAGAAGTCACCAAAAAGTTTTATTTTATTTTTTTAAAGACAATAACATTCTAAACCTTCTTAGTTTTCTTTTCACTTCCTTTATGAACATTAGCATTGCTCTTTACCAGTCTATTTTTCACAAGGAAACAACATTTTTATTACTTTACCAGCATTACTGTAGGCATAAGTAAAGGAAAAAAGCCTAGAATATTATTAGCTGAGATATTTTTTCTAACATGTGAACATTTGAATTCATCCTTCAGCAAATTTAAAATCGCTACATGGCTTGAATTCAGGGTCACTCTGGAATAGTTGAATTCATGAATACTAAATCCTTGAATTATGTGTATTTATATTCAGACATTCTAATATAAATACATATGCAATTATTAGCTTATCTGATGTATTGAATATTATGCAAAGTTTTCTTTTTCTCAGTAACTATGAATTATTGGATATGATTTTATATATTCCCCAAGCTCCTAATATAGGGGAAGATAACATATGTGCTCATCTAACTTTATTTTTTGTGATGCCTTTCTTAG
Seq C2 exon
CTCCCAATAATACATGTGATGAAAATGCTTTCATGTGCCATAATAAAGTATGCATTCCCAAGCAATTTGTTTGTGACCATGATGACGACTGTGGAGATGGCTCTGATGAGTCACCGCAGTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000168702:ENST00000389484:52
Average complexity
IR
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=93.2)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=90.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
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
- Pre-implantation embryo development