HsaINT0096229 @ hg19
Intron Retention
Gene
ENSG00000242108 | LRP1
Description
NA
Coordinates
chr12:57538755-57539273:+
Coord C1 exon
chr12:57538755-57538883
Coord A exon
chr12:57538884-57539009
Coord C2 exon
chr12:57539010-57539273
Length
126 bp
Sequences
Splice sites
5' ss Seq
ACGGTGGGT
5' ss Score
8.27
3' ss Seq
CTTCTCTTCCCCATTCCCAGAGC
3' ss Score
8.98
Exon sequences
Seq C1 exon
ATTTTGATGAGTGCTCAGTGTACGGCACCTGCAGCCAGCTATGCACCAACACAGACGGCTCCTTCATATGTGGCTGTGTTGAAGGATACCTCCTGCAGCCGGATAACCGCTCCTGCAAGGCCAAGAACG
Seq A exon
GTGGGTGGGGTTGCCTCTGGCCACAGTGCTAACTAAGCCCCCTCAATGCTGTTCCCTGGTGGGTGGTGGCCTGAGAGGTGGTCCTAGAGCCCTGGCTGCACGGACTCTTCTCTTCCCCATTCCCAG
Seq C2 exon
AGCCAGTAGACCGGCCCCCTGTGCTGTTGATAGCCAACTCCCAGAACATCTTGGCCACGTACCTGAGTGGGGCCCAGGTGTCTACCATCACACCTACGAGCACGCGGCAGACCACAGCCATGGACTTCAGCTATGCCAACGAGACCGTATGCTGGGTGCATGTTGGGGACAGTGCTGCTCAGACGCAGCTCAAGTGTGCCCGCATGCCTGGCCTAAAGGGCTTCGTGGATGAGCACACCATCAACATCTCCCTCAGTCTGCACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000242108-LRP1:NM_002332:5
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:
GATGAGTGCTCAGTGTACGGC
R:
GAAGTCCATGGCTGTGGTCTG
Band lengths:
252-378
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)