HsaINT0096384 @ hg38
Intron Retention
Gene
ENSG00000081479 | LRP2
Description
LDL receptor related protein 2 [Source:HGNC Symbol;Acc:HGNC:6694]
Coordinates
chr2:169279372-169280519:-
Coord C1 exon
chr2:169280350-169280519
Coord A exon
chr2:169279596-169280349
Coord C2 exon
chr2:169279372-169279595
Length
754 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
AATTTTGGTTTTTCTTTCAGGTT
3' ss Score
10.86
Exon sequences
Seq C1 exon
TTGGCGAGGCCTCCATTATCTTCTCCAATGGTCGGGATTTGTTAATTGGTGATATTCATGGAAGGAGCTTCCGGATCCTAGTGGAGTCTCAGAATCGTGGAGTGGCCGTGGGTGTGGCTTTCCACTATCACCTGCAAAGAGTTTTTTGGACAGACACCGTGCAAAATAAG
Seq A exon
GTAAATAGAAATTTCAGTAGCTGAATGGAACCCTGAGCACAAAGTGTTGATAGCTTTTCACTTTTAGAGGGAGTAGAGGGGAAAGTTCCTTTGTTTTCTAACAAAAAAGGCCCTTGAGATATTTTATGTTAATCAGCACCTTTTCCATGCTATACTATTACATGTGACCTATTAAACAAAGCAGTCTATTATATGGATTAGCCTTGAGCAACTTTTAATTTTATTCGAAGTGGAGTCCAGGAGCCTAATTAAAAGAAATAGTAGACATTCTTTCAAAACTGGATAGATATTTGGTAGTAATTTTTGAAATTTGATCATTTAAAATGTAAAAAGCACACTGCTTTTCTGGATGATAAAAATCAGATTTTTACCTGCATCTTCTAAATGGAACTGTAATTCGGGATCGAGTAACAAATATTGACGGTATTTTGTTTAATGGCCCAAATTTTGTTTCACTGTCTTATTTGGAAAGTGTGATGGGTTTAATTTCATCTTGGAGTAATGCAATGGAGATTTTTGAAACATAAATTTCAGAAACTCTTAAAGAGTTATGGAATTTTATTTATTTCTTCTTACATTTTATTATACCATTAATACGATTCTCATTTATTTAAATGATAACTTGCATGAAATTTCTGAAAATTGAGAATTTAGATTTTTAGCACTTCTGATTTGATTATAGCTAAAAAAAATCAAAACAAACCACGTAGTTAGTGATGCTGAAGAAATATAATAATTTTGGTTTTTCTTTCAG
Seq C2 exon
GTTTTTTCAGTTGACATTAATGGTTTAAATATCCAAGAGGTTCTCAATGTTTCTGTTGAAACCCCAGAGAACCTGGCTGTGGACTGGGTTAATAATAAAATCTATCTAGTGGAAACCAAGGTCAACCGCATAGATATGGTAAATTTGGATGGAAGCTATCGGGTTACCCTTATAACTGAAAACTTGGGGCATCCTAGAGGAATTGCCGTGGACCCAACTGTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000081479:ENST00000263816:11
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:
PF0005812=Ldl_recept_b=PU(26.8=19.3)
A:
NA
C2:
PF0005812=Ldl_recept_b=PD(68.3=37.3),PF0005812=Ldl_recept_b=WD(100=54.7),PF0005812=Ldl_recept_b=PU(0.1=0.0)
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:
TCTCCAATGGTCGGGATTTGT
R:
GCAATTCCTCTAGGATGCCCC
Band lengths:
355-1109
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