HsaINT0096407 @ hg19
Intron Retention
Gene
ENSG00000081479 | LRP2
Description
low density lipoprotein receptor-related protein 2 [Source:HGNC Symbol;Acc:6694]
Coordinates
chr2:170081820-170083098:-
Coord C1 exon
chr2:170082932-170083098
Coord A exon
chr2:170081964-170082931
Coord C2 exon
chr2:170081820-170081963
Length
968 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGT
5' ss Score
9.09
3' ss Seq
CCCCTTGTCTTTCTTTCCAGGGT
3' ss Score
12.29
Exon sequences
Seq C1 exon
ATGATCAACCTTTCTTAATAACTGTAAGGCAACATATAATTTTTGGAATCTCCCTTAATCCTGAGGTGAAGAGCAATGATGCTATGGTCCCCATAGCAGGGATACAGAATGGTTTAGATGTTGAATTTGATGATGCTGAGCAATACATCTATTGGGTTGAAAATCCA
Seq A exon
GTAAGTTTTGAATAACATTCAAAGTATATAATTTATTCTTGAAGAGCCTGCCTGCACTGATGTTTTCTTATAAGCAAACTTTTGTCATGTGAGTAAAAGGGAAACAATGTGGAAATAAATTTATCCCTAAGTTTTTTGATTCAATGAGGGGTATATATGTGAGCTTGGCCTGGAGCAAAAATCATAACACTCTTTAGCTTCAGAATAAGAAACAAATTTAAGCTATTGTGTATTATTTACTCATTCAGCAAGTATTTTCCAGAAGTGCCTATGATTTGCCCTGCACTGAATTACCTGCTTCTAACCACAGAATACATGCCAAGAAGCAGCAGTCACAATGCTTGCCCCTAGAGGAGTCTTAAGCTAGTAGAAAATATTCGACGAATATAAAAATGATCAAAACTCAAGATAAAAGTAGTAGCTCCCTAAGGGAATTTAGTGAAAGCATTTGATGTGGTGCTGGGGCCTTCCTTTAGAATCCTTTAGAATATTTGCCTCTAGGGTAAGAATGAACACTTCTCCAGTTCTCTTCCTCAGAGGTCATTTTCTTCAGCCTTCAGGGAAAAAACCTGTAAGAATAGGGAAAGAGCAAGAAGACTATAAAGGAGGAAGAGAAGAAAAATCTTTGTGTTTCATGTTTGTCACCTATATACAAAATATACTCCTGGTCTTCTGATCCACATCTGTGACTTGGGTTTTTCTCATGACTTGTATGCTTGTGGTAGTTAAGAACTATCTCTGTAGCCAGTACTGGAGATAGCCTGAATGGTAAGCCTTGTGTATTCCTGTGACACACTGAAAAATCGTTTGAAGCCTACCCAGTGGTGCTGAACCTTTGTTTGCCTTTCCTCTGAGTGTAAGGACTGTTCAAGAAATACAGCAGCTGGCAGTAGCCACAGTGAAGAAAGGGTTCTTTTGTAGGAGCCATGGCCTTGGAACTGCTCACCTCCCCTTGTCTTTCTTTCCAG
Seq C2 exon
GGTGAAATTCACAGAGTGAAGACAGATGGCACCAACAGGACAGTATTTGCTTCTATATCTATGGTGGGGCCTTCTATGAACCTGGCCTTAGATTGGATTTCAAGAAACCTTTATTCTACCAATCCTAGAACTCAGTCAATCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000081479-LRP2:NM_004525:32
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:
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:
CAACCTTTCTTAATAACTGTAAGGCA
R:
CGATTGACTGAGTTCTAGGATTGGT
Band lengths:
304-1272
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)