HsaINT0096218 @ hg38
Intron Retention
Gene
ENSG00000123384 | LRP1
Description
LDL receptor related protein 1 [Source:HGNC Symbol;Acc:HGNC:6692]
Coordinates
chr12:57143679-57145100:+
Coord C1 exon
chr12:57143679-57143798
Coord A exon
chr12:57143799-57144971
Coord C2 exon
chr12:57144972-57145100
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
ENSG00000123384:ENST00000243077:4
Average complexity
IR
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:
PF146701=FXa_inhibition=PD(92.7=92.7)
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=79.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
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