HsaINT0096458 @ hg19
Intron Retention
Gene
ENSG00000081479 | LRP2
Description
low density lipoprotein receptor-related protein 2 [Source:HGNC Symbol;Acc:6694]
Coordinates
chr2:170145536-170147507:-
Coord C1 exon
chr2:170147355-170147507
Coord A exon
chr2:170145656-170147354
Coord C2 exon
chr2:170145536-170145655
Length
1699 bp
Sequences
Splice sites
5' ss Seq
GTAGTGAGT
5' ss Score
5.8
3' ss Seq
AAGTTCTTTTCTTCGTTTAGGTA
3' ss Score
7.51
Exon sequences
Seq C1 exon
AAAGCGGTCCTCATGATGTTCATAAATGTTCCCCAAGAGAATGGTCTTGCCCAGAGTCGGGACGATGCATCTCCATTTATAAAGTTTGTGATGGGATTTTAGATTGCCCAGGAAGAGAAGATGAAAACAACACTAGTACCGGAAAATACTGTA
Seq A exon
GTGAGTATAGACATTTACCTGGGTAGCTTTCAGATAAAGATATTTCTGTTTTCTAGAACAGACGTTCAAATACAGTGTATCTGTTGGCATTTGCATAACAAAGCACCCCAAGACTTAGTGGCATAAACTGAGAAACGTGTCTTATTTCTCACAGTTCTGTGGGTTGGCTAGGTAGTTCCTCTGGCCTGTATCAGCTCACTCACACGTCAGGATGTTGCAGTAAAAGCTTGGGCTAGCCTAGCCTTGTTGACCCAGAGGCTGAAAGAGCAAATCCTAGGGCTCAAGTACTTTCAAGGTTCTACTTATGCCAAGTTTGCTCAAGTCTTATTGTCCAAAGCAAGACACTTGGCCAAACCCAGAGTGGATGGAAGAAATAGACTCCATCTATTGATGGGAAGAGCCTAACAATTTTTTAGCAACTCCCCGTTCCTAATCCCTAACGCACACACAGGGAGGATTGTTTCAATGGCAATTTTGATGACCTTAAAGATGTTCTGGAGATTTTATTACCTGGCTTATACTTATGGAAAAAGGCCTTGTCTGGCTGTACTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGCTTCTGGTTCCTGGGTTATGTACCTTGAGTTACTCTCCAATGGCAAAACTGAGTTGGCCATGCACAGTGTTGTTCGATTATGTCTTGTGTGACCACATTCATTTATGAGGAAACTGACTGGAACTAGGGATTTTTTTTCTCCTTTTTTGGGGCTGTAGAATATTCACCCCACCAACAACCCATCAACTCTGTGGACAGCTGATGGTCCTGTAAGGAAATGCCATTTAAAACCTTGATTTCATCAATAATATACTCTAACTAAATTTGTGATTGCCTAGAAGTGCCCATGTAACTGCAACCCCAAGGTTATTTTTTGTTTCCTGACAAAAATTGTACATAATATTTAAACAGGCAGAGACCTCTATGGCATTTTTTTCTCTATTTCATTTGGGAGCCCATTTAAAAAAGCTTAAAAATTAATAAGAGATATGTAGTCACAGTATGAAAGTTGGAAAATAAAAATTAACCAAAAGAAAAAAATATAATCACCTGAAATCCCATCTCTTGAAGCCAGCCACAGTTAATATTTCTAGGGCTTATTCTTGCTCCAGTCACTTGGGAGTTCTTAGCCCTTTTTACTATGTAGACACAAAGATAGACCCATGCATGACCTGATTTTTTTTTCATAAATAAGACTTTTAATGACTTATACTTGCACATAGTTATAACTTTAAAAAGGAGCTTTTTCTTTTCTTTTGTTTCCACTCAAGGCAGCCTCTTGTTCTGTCACCCAGGCTAGAGTGCAGTGGTGCAGTCATAGCTCACTGCAGCCTCCATCTTTTGGGCTCAAGTGATCCTCCTGCCTTGGCCTCCCAAAGTGCTGAGATTACAGTTGTGAGCCACTGTGCCTGGCTAATGCTTTTATTTTTAATTTTTTGTGAATATGAGGTGTAGCTACATTACCCAGGCTGGTCTTGATCTCCTGGCTTCAAGCAATCTTCCTGTCTCAGTTGAACTTTTATTGCAAAGTTTTGCAGTAAGCTTTGAAGGGTGACAGATTTTTCTGTACATCTACTTCATGCTTACTGAGCTGCTACTCATGGAAAAAGAAGCTATTAGATTAATCAGTCTTGTCCAGAGGTCACCATTCATTTAACAAAGTTCTTTTCTTCGTTTAG
Seq C2 exon
GTATGACTCTGTGCTCTGCCTTGAACTGCCAGTACCAGTGCCATGAGACGCCGTATGGAGGAGCGTGTTTTTGTCCCCCAGGTTATATCATCAACCACAATGACAGCCGTACCTGTGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000081479-LRP2:NM_004525:8
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=84.6),PF146701=FXa_inhibition=PU(2.5=1.9)
A:
NA
C2:
PF146701=FXa_inhibition=PD(95.0=92.7)
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:
AAGCGGTCCTCATGATGTTCA
R:
ACACAGGTACGGCTGTCATTG
Band lengths:
270-1969
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)