HsaINT0096218 @ hg19
Intron Retention
Gene
ENSG00000242108 | LRP1
Description
NA
Coordinates
chr12:57537462-57538883:+
Coord C1 exon
chr12:57537462-57537581
Coord A exon
chr12:57537582-57538754
Coord C2 exon
chr12:57538755-57538883
Length
1173 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGT
5' ss Score
9.79
3' ss Seq
TCTTGCCCTTTCCTCGGCAGATT
3' ss Score
11.29
Exon sequences
Seq C1 exon
AGCTCCAAGGCAACTGCTCTCGCCTGGGCTGCCAGCACCATTGTGTCCCCACACTCGATGGGCCCACCTGCTACTGCAACAGCAGCTTTCAGCTTCAGGCAGATGGCAAGACCTGCAAAG
Seq A exon
GTATGTGAGTGCATGTGCCTGTGTGCATGTGTGTGTGCCAGTAGCCAGTTGAGGTGGGCAGGGAGGGGCAGAGAGGGGTAGGGGGCCTGGCTGGAATAAGAAACTAGAAGGAAGGTGCAAGAGAGGGGGTGCCACCACCCCAGGGCATGACTGTGAGCCCTAACCATTTGCTTCCACTAGACTTCTAAAAATTCACCTTAAAATTATAGTTTATATGTAAATTTTTCTGTTGTAAAAAATTAGAGCATTAACAGATAAAACCAAAGTCCCCTTTGACAAATCCCCCTCAATTCCGGTCCCCTTCCCATCTCCCTGGAGTTCAACTCTATTATCAGTTTGCTCTCTCTCTTTCAGGCCCTTTTTTGTGCATTTGTCTCTGGGTATTCACAGAAAATCTAATTGGAAGTACTGCTCAAGAGTACTGCGTGCTCTTTTTTACATAAACAATAGTATACTGTGTATATTATTTTCAATGTTTTTCACTCATCAGTATGTTCCACAATTTTTTTTTCTGTGTTAATATGTAAAGATCTACATCATTCTTTTAGAAACCACTATGACGTATGACTTTTACCACAGTTTACTTGGTCACCTCCCTGTTGATGAGTGAGATGTTCCCAATTTTTCACTGCTACAAGCAATGCAAACTTTTCTGTTTTAAATTTGCCTCCCTCGGGTCTTTGTGCAAATGCCACCTTCTCAGTGAAGCCGTCCCCCGACCCCTCTAAAACTGCATCCCTGCCATCTGCATTCTCTATCCCTGTTCTCTTTTCATTGCACTAGCACCTCTAATGTATACTTTATTTACTTTGTTTCATATGTTATTATAGTAACTATATTTCATTTATTATCTGAATATAAGTTTCATGAGGACAGCAATGTGGGTCTATTTTAAAGTTCACTGATGCACCCCTGGCACCTGACCCATAGTAGGGACTCAATAAATCTTCCCTGCGTGGATGAGTGATATGTACACGAGTGTTTCTCTAGAGTGGATTCCAAGACTGGACTTGCTGGGTGTTAAGGTTTGCACATTTCATGCTGTAATAGATTCTGCCGAACTGTCCTTCAAGGTAGCTGTAAGGATGGACATGTTGATCATGTCTGATGATCACCCACTTCGTTGCCCTTGTCACACTGGAAATGACCACATTCTTGCCCTTTCCTCGGCAG
Seq C2 exon
ATTTTGATGAGTGCTCAGTGTACGGCACCTGCAGCCAGCTATGCACCAACACAGACGGCTCCTTCATATGTGGCTGTGTTGAAGGATACCTCCTGCAGCCGGATAACCGCTCCTGCAAGGCCAAGAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000242108-LRP1:NM_002332:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
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:
GCAACTGCTCTCGCCTGG
R:
CGTTCTTGGCCTTGCAGGAG
Band lengths:
240-1413
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)