HsaINT0096437 @ hg19
Intron Retention
Gene
ENSG00000081479 | LRP2
Description
low density lipoprotein receptor-related protein 2 [Source:HGNC Symbol;Acc:6694]
Coordinates
chr2:170148763-170150771:-
Coord C1 exon
chr2:170150658-170150771
Coord A exon
chr2:170148880-170150657
Coord C2 exon
chr2:170148763-170148879
Length
1778 bp
Sequences
Splice sites
5' ss Seq
GCAGTACGG
5' ss Score
2.11
3' ss Seq
CAGCTGTTGCTTTATTCCAGACT
3' ss Score
5.92
Exon sequences
Seq C1 exon
CTGAGATATGCTTGCACAATGAGTTTTCATGTGGCAATGGAGAGTGTATCCCTCGTGCTTATGTCTGTGACCATGACAATGATTGCCAAGACGGCAGTGACGAACATGCTTGCA
Seq A exon
GTACGGTGATTTCTTTATGCTGGGTCATGTTGTTGGGAGTGTTTTGTTTTGTTTCGGTTTTGTTTTGTTTTATCCCCCCGCTCCCCCACCAATGTACCTCTTTTTTCAAGGAGAAGAGTCACTACGTTTGATGGCAGATGGAATCAGACGGTCACTAGGGGGTCTTGGCACAAGCCTTTGTGGTGTTGCTCGACCTGGGCTCCTTTATTTTCCAAGGATCTGTGTAGATGTAAAGGGCTGGTGATGGACAGTTTGCCTTCTTTCCTTAGGCTCCAGGGGTACAGGATATATTGTATCACTGGATTCTCAAATGACCCATACCTCTGACAACCTTGATAGTAGAATGAGAGAAGTGTTTTTAAGGGAAAGGAAGTTCCTAGGAGTGGCTCTAACTCTCCTCTTTACTTTGAAATTTCTGCTGCATTAAAGTTGGAGGGTCAGGAAAGTTTCTTTTTCTTCGTTTTCTTTTTTTGGAGATGGAGTTTTGCTTTGTTGCCTGGGCTGGAGTACAGTGGCGCGATCTCGGCTTACTGCCACTTCCGCCTCCTGGGTTCAAGCAGTTCTCCTGCTTCAGCCTCCCGAATAGCTGGGATCACAGGCATGCACCACCATGTCTGGCTAATTTTGTGTTTTTAGTAGAGATGGGGTTTCACCGTGTTGGCCAGGCTGGTCTCGAACTCCTGATCTCAAGTGATCCGCCCGCCTCGGCCTCCCAAAGTGCTGGTATTATGGGTATGAGCCACCACGCCCAGCCTGAAAGTTTCAGTGTGGTATAGGTGGCTTTCTTGCCTCCACTTCTTCACGCTGACCTTGCTTTTATGTCCATGCTGTTGCCTGCAATGCAAATGACCTCTCTTATTGTTGCCACCTCTCCACTTATGTTTTTTGGAAAGAGTAAAGTTAGAAGACTCTGTGAAAGAGTTTTACTATGTTCAGTAAGTTGGCAGCTTTGCGTGGTGATTTATTTACTAGAATGTATGATTTCCCTCCACACCTCTTTTGATTGGTTGGTACCCATGCCTTAGGGTGTTGTTAAATATTTTCGATATCACCCTAATTTTCAATGAGCCATGCCTGACTTCCTTTCTGGAACCTGGGCTTATTTCAGTGACAGAGAATTAAAGAGAATGTGACATCATGGAATGGTCGACTCAGAATCATTTGGTCATAGATTAGCAATTACGGAGCTTGTAGTAAAGTATGAGAACGTTGGATGTTGTCATGTCTGCAGCATCTTTGTCTGCATTTTCTGTTCTGTGCCAACGCATTGCAAACCATCTTGTTTTTAATTTTTTTTTTTTTTTTTTTTTTTTTTGAGACAGGGTCTCACTCTGTCACCCAGGCTGGAGTGCAGTGGTGCGATCTTGGCTCACTGCAACTCCACACACCCCCACCAGGCTCATGCCATCCTCCCACCTCAGCCTCCTGAGTAGCTGAGACTACAGACATGTACCACCATGCTTGGCTATTTATTTTTATTTTTCGTATTTTTGGTAGAGATGAGGTCTCACCATGTTGCCCAGGCTGATCTAATTTTTAATCTTGAAAAACAGAAACCGGCACCTGAGTTCATTTCCTGGACCCAAAGCTGCTGTTATCTTCTTCTTTCTCTCTCTTTTTTTTCCTCCTTTTTAAAAATTTTTGTCAAGATGTCTAAGGGATTAAATTGATATAGAAATTTCAATTTCTAGGAGTACTGCTTAGGCAGTGAGGTGAGAGCACTTTCAGTTTTTCCCGGTGATTTGTGTCTTTGGAGTGCAGCTGTTGCTTTATTCCAG
Seq C2 exon
ACTATCCGACCTGCGGTGGTTACCAGTTCACTTGCCCCAGTGGCCGATGCATTTATCAAAACTGGGTTTGTGATGGAGAAGATGACTGTAAAGATAATGGAGATGAAGATGGATGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000081479-LRP2:NM_004525:6
Average complexity
IR-S
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=94.9)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=92.5)
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:
TGAGATATGCTTGCACAATGAGT
R:
CACATCCATCTTCATCTCCATTATCT
Band lengths:
230-2008
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)