HsaINT0096399 @ hg38
Intron Retention
Gene
ENSG00000081479 | LRP2
Description
LDL receptor related protein 2 [Source:HGNC Symbol;Acc:HGNC:6694]
Coordinates
chr2:169239527-169241365:-
Coord C1 exon
chr2:169240988-169241365
Coord A exon
chr2:169239776-169240987
Coord C2 exon
chr2:169239527-169239775
Length
1212 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
ATTCTCTTTCTTTTTTCTAGATG
3' ss Score
11.04
Exon sequences
Seq C1 exon
CAACCAGGCCTCCTGGTATGTGCCACTCAGATGAATTTCAGTGCCAAGAAGATGGTATCTGCATCCCGAACTTCTGGGAATGTGATGGGCATCCAGACTGCCTCTATGGATCTGATGAGCACAATGCCTGTGTCCCCAAGACTTGCCCTTCATCATATTTCCACTGTGACAACGGAAACTGCATCCACAGGGCATGGCTCTGTGATCGGGACAATGACTGCGGGGATATGAGTGATGAGAAGGACTGCCCTACTCAGCCCTTTCGCTGTCCTAGTTGGCAATGGCAGTGTCTTGGCCATAACATCTGTGTGAATCTGAGTGTAGTGTGTGATGGCATCTTTGACTGCCCCAATGGGACAGATGAGTCCCCACTTTGCA
Seq A exon
GTAAGTTTCCTGACCACAGTTTACTGGCCATAAACTCATTCTGAACAGTAGCCTGGTGTGCATCACCATTGTCACAGTCACTGTGTAGCTTTGTAGGAAGGATTTCAGTTCCTCTATGAGTTCACATCTGTGTAGGGGGTAACCATAATTGAATTCAAATACATCACCATTGGATAATTTTCTGATTAAATCCTTTGTACTTGGTTATGTGTTTTTACTTCTTTTTATGTCTTTGTTTCAAAAAATGAGACTAAATTGAGGCCATTAGATTGTCAAATTAAATTTGGTTCTGTTGGTAATGTGCTCATTAATTTTTCTAACTTTAATATTTTCTAATTTCAATCAGAACTTATCACAAAAAAATGAAGTCCAGGGATTTGTGTTGCTGTGATTAAAGTGCTGTGATTGGCATGTAATCCTAATTACTGTCATTTCTTTCTTTCCTCTTTAATCAATGCTCACTCTCAGATGAACCCCAGCCAGGTATGATTGTGAAGTATTTCAGATTCTTATGATTTCATATGTGTTGTGTTTGTTCTGAAAATGTCCTGATTATATTAACTTACTTCCCTTTCTAACGCATGTTCTGTGTTATGACTCTTACAAATATGTTAGAGTACACATGGAAATAGAAGGCATTTGCATCCCCAGGCATGTGAACTGTCTTAGGGTGGCTTTAGGCATTTTCATTTTGGCCCTGAAAGTAAGGCATGACGATATGTTACCGGATCTGTGTACTCTAATATTTCAATGACCTTTCCCCTTTGATTTGTTCACTTCATAGATTTTCTGGTCTTTTCTCTTAAATGTTTGTCTATCTTCCATTTCTGTATAGATAGTAGAATTTCAGAGGAAGAAAACGAGAAACAATTTTAAGTGTCTTTGCATGCTCTATCAATGACACTTTTCTTCCTTGATGTCAACAATATTTTCCCAAGGGTTCTCATTGCATTAAATGGAGTTATACTATTGGGTTGTAGTGAAGAAGGTGATCATACTCCAATGGATATGAAGGATGGTAAATCCTCAGACAAATTAGAGCAAACCCTGAACAGCCTGTGGAACTCACCCAAGTGCATGCTGCACTTAGCTCTTGTCTGGGCATCATATTGAAGGTGGCATGAGACTGCATAATAAATATTGCATAAGAGTGAATCAAAGAAGCAAAGATTCTTGATTTTCTTTTTTCATTATTCTCTTTCTTTTTTCTAG
Seq C2 exon
ATGGGAACAGCTGCTCAGATTTCAATGGTGGTTGTACTCACGAGTGTGTTCAAGAGCCCTTTGGGGCTAAATGCCTATGTCCATTGGGATTCTTACTTGCCAATGATTCTAAGACCTGTGAAGACATAGATGAATGTGATATTCTAGGCTCTTGTAGCCAGCACTGTTACAATATGAGAGGTTCTTTCCGGTGCTCGTGTGATACAGGCTACATGTTAGAAAGTGATGGGAGGACTTGCAAAGTTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000081479:ENST00000263816:25
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:
PF0005713=Ldl_recept_a=WD(100=30.7),PF0005713=Ldl_recept_a=WD(100=29.1),PF0005713=Ldl_recept_a=PU(88.6=30.7)
A:
NA
C2:
PF0005713=Ldl_recept_a=PD(9.1=4.8),PF146701=FXa_inhibition=WD(100=42.9),PF146701=FXa_inhibition=WD(100=40.5)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAAGGACTGCCCTACTCAGC
R:
GTATCACACGAGCACCGGAAA
Band lengths:
346-1558
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