HsaINT0096522 @ hg19
Intron Retention
Gene
ENSG00000162337 | LRP5
Description
low density lipoprotein receptor-related protein 5 [Source:HGNC Symbol;Acc:6697]
Coordinates
chr11:68205914-68207384:+
Coord C1 exon
chr11:68205914-68206150
Coord A exon
chr11:68206151-68207244
Coord C2 exon
chr11:68207245-68207384
Length
1094 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
CCCCGTCCCTTCCCTGCCAGGCA
3' ss Score
9.89
Exon sequences
Seq C1 exon
AAATCACCAAGCCGCCCTCAGACGACAGCCCGGCCCACAGCAGTGCCATCGGGCCCGTCATTGGCATCATCCTCTCTCTCTTCGTCATGGGTGGTGTCTATTTTGTGTGCCAGCGCGTGGTGTGCCAGCGCTATGCGGGGGCCAACGGGCCCTTCCCGCACGAGTATGTCAGCGGGACCCCGCACGTGCCCCTCAATTTCATAGCCCCGGGCGGTTCCCAGCATGGCCCCTTCACAG
Seq A exon
GTAAGGAGCCTGAGATATGGAATGATCTGGAGGAGGCAGGAGAGTAGTCTGGGCAGCTTTGGGGAGTGGAGCAGGGATGTGCTACCCCAGGCCCTCTTGCACATGTGGCAGACATTGCTAATCGATCACAGCATTCAGCCTTTCCCACTGAGCCTGTGCTTGGCATCAGAATCCTTCAACACAGAGGCCTGCATGGCTGTAGCAACCCACCCTTTGGCACTGTAGGTGTGGAGAAAGCTCCTTGGACTTGACCTTCATATTCTAGTAGGACATGTGCTGTGTTGTCCACAAATCCTCATGTACCCTAGAAATGAATGTGGGGGCGGCTGGGCTCTCTCCAGAGCTGAAGGAATCACTCTGTACCATACAGCAGCTTTGTCTTGAGTGCAGCTGGGATTTGTGGCTGAGCAGTTACAATTCCTACGTGGCCCAGGCACCAGGAACGCAGGCTGTGTTTGTAGATGGCTGGGCAGCCGCACCGCAGAGCTGCACCATGCTGGTTTGTATCACATGGGTGACCATGGTATGTCTAAGAAGGTGGAGTCCCTGTGAGGTCTGCAGGTGCCCCCACAGCTCCAGGCCACCTTGAGGATTGCCTCTGCCTGCCCAGCCCTGAGTTCCCTCTCCCCTGTCCTGTCCCACTGTCACCCCAAGCCGGCCTCATTGGGAGCCTGTTGGATGGCAGGGTATAGATGTAACCTGATTCTCTCTGGGGAGCGGGGTTATCTGGCTTCTCAAGAGCTCCTAGGAGCCCACAGTGGTGGCACCATCACAGTCGCAGCAGCCCCCAGAGAACGCGGCCCTGTCTGTTCCTGGCGTGCTCTGTGCTGCCCCGCCTGGGTTCCCTGCCCCAGTCGCAGGCCCCTTGGAGGAGGTACCATGTGTCTCCCGTTTCACAGATGAGCCCCGGGGAGCTCACTCTAGTAGTGGCCAGAGAGGCCTGCGGCTCAGGGAGCGGGGCACATTTCCAACAGGACACACCGCCCTGGTCTGAGTCTCGTGGGTAGTGGGAGCAGAGGAGAGCGCCCTATGTCTGTGGGGCGGCTTGGCTGAGCCTGGAAGCCACCTGACCTCCCCCGTCCCTTCCCTGCCAG
Seq C2 exon
GCATCGCATGCGGAAAGTCCATGATGAGCTCCGTGAGCCTGATGGGGGGCCGGGGCGGGGTGCCCCTCTACGACCGGAACCACGTCACAGGGGCCTCGTCCAGCAGCTCGTCCAGCACGAAGGCCACGCTGTACCCGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162337-LRP5:NM_002335:20
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.075 A=NA C2=0.270
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
AAATCACCAAGCCGCCCTC
R:
GACGAGCTGCTGGACGAGG
Band lengths:
349-1443
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
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)