HsaINT0096340 @ hg19
Intron Retention
Gene
ENSG00000168702 | LRP1B
Description
low density lipoprotein receptor-related protein 1B [Source:HGNC Symbol;Acc:6693]
Coordinates
chr2:141260532-141264487:-
Coord C1 exon
chr2:141264365-141264487
Coord A exon
chr2:141260673-141264364
Coord C2 exon
chr2:141260532-141260672
Length
3692 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGT
5' ss Score
10.36
3' ss Seq
TGTTTTTTCTGCGTCTCTAGGAT
3' ss Score
11.21
Exon sequences
Seq C1 exon
CTCCCAATAATACATGTGATGAAAATGCTTTCATGTGCCATAATAAAGTATGCATTCCCAAGCAATTTGTTTGTGACCATGATGACGACTGTGGAGATGGCTCTGATGAGTCACCGCAGTGTG
Seq A exon
GTAAGTACATCTAAAACTTCATGAAGGAGATTCCTAGGCTAAGAGTCTTTCAAAACTAGTATGTAAATAAAAAACTAAAGCAACAAGCAACACATTTCTTAGTGTCATCAACACCCAGTGAATTCAGTAATACACAATCACAGCACATATAACTTATTTAAGCTCTAGTATAATACATTTCTTTGGAAATCATACCTGTTTGCAGTATATTTGCATCAGTAATATTGGAAAATGTTTATAAAAATGTCTTTGGGCTGGGTGCGGTGGCTCATGCCTGTAGTCCTAGCACTTCGGGAGGCTGAGGCGGGTGGATCACCTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACATGGGGAAACCCCATCTCTACTAAAAATACAAAAATTCGTCAGGCATGGTGGCCATGCCTGTAATCCCAGCTACTCGGGAGCCTGAGGCAGGAGAATTGCTTGTACCCAGGAAGTAGAGGTCGCAGTGAGCCGAGATCATGCCACTGCACTCCAGCCTGGGTGACAGAGTGAGACTCCATCTCAAAATAAATACATAAATAAATAAATTAAAATTAAAATTAAAAATGTCTTTGGTTTAACGTATTTTGAAATACTTGAAATTTGAAGACAGTATATGGCTGGCTTGTTCAGTTGTATAGCCAAATCAAATATTTGAGTAAAAAAAACATAATTCAGAATTATCAGAAAAGCCGGATACTTAATATTTTTCTACCCTTTATGTTTTGATGTATTCAATGATTTGATAAAATTTAATATTATTATCATGAAATGTATATTGCCTTTACATATATTTTTCTATGTTATATATAATATCTATACAACCTACAACTTTAATGATAGCATCAATATATTAAAAATGCTCAGTTGAAGTTTAACTGTAATGTGAACTTAATGTTTTCGTAAAATATCTGAATGCATAGACAAGAATAAATATATGTAATGAAAAGCTGTGAACTTTATATATGCTCATAGAAGGCAACAGATTTAGTGCCTGCCTTTGTTCTCCCTGTGCAGCGTCTATAGCCTTGGCCTTTGATATGAATCTCACTGAAATTAGTGGATATCAGTTTTTATGATTATTTCAGCGTGAAGTCTTACATTTGATGTGATATTTTAAAGGCTACATCATAACACAAGATATAAATCTGAAGCAGAGTTATATCTGATTGAATATCTCCCCTCTGCTAGACATTATATTTGGTTGATACAGAGATGAATGAGACAGAGAGGCCCCACTTGGAAAAGTCACAGATGAATGGAAAAAACAGAAATTCAATATAGTACAATAACATATTATGTCAAATAGAAACAAGAATCACAATGAGATCAGAGCTGAGAAGAATCGTTCTTGAGGTAGGCACTGAAGAATAGAAGCAGGGAATGTTAGTAAGAGGAAATCCTGTGTAATGCTAGAGAGCGTGGTGTGTGGTGGTTAATAGCATGAACTCCAGAGCTGGAGAGCCTGGGTTCAAGTCCTGGATCTTCTGTTTACTAGCTATGTGACCTTGAAAAGGTCACTTCACTTCCCTGGGCCTCGGTTTTCCATCTGTAAAGTATGTTTAATAAAAAGGCTTAAATGTTAGGACTGTTCAGAGAATTAAATGAATTTATATTTGTAAAGTTCTTAGAGCAGTTTCAGGAACAGTAAATTCTATATGTGTTTACAAAGACTGTAAATTGAGATGGTCGAGGAATAGCAATTAGTCTTCTGTTAGGTAAGTGGACATTTAAAAAGATGAAGTTAGATTTGAAAAAGGCTGAAATAAAGTGTTAGAGAATTTGTATTTAATTATTTTGTCTCTCAGAGGCCAGTGTACATTTTGAAACAAGAGAATGAAATGTTACAGTCACATTTTTGTTTTGGAACCATATTTTTTCACCAGAGTGGGAGAAATACTGCCATGGAGCAAAGGAGCCATAGAGGGAAATAAACTAGTTAGGGGGTTATTGTGATAGTTCTGATGATTAATGACGTGGTTTTGAACGAGGTTGGGAATGGTGGAGTGGAAGGTACAGAATGTGTCAGACTTCATTTACAGTAGGACATGGAGGATAAAAGGGAATTTCTAGCTTGGATGACTTGGTGATTGGTGCTGCTGTTAATGAATGTTGGGATACAAGAGGTTAAGGGTTAATTTTGTCAATAAGATGTGAGATGTAATAAAGACTTTATTGTGGATCTTTTGAATATGAGGTGTTAATCAGACAATCACATAAAGCTATATAGTGACTGTGTGATAATTTAATTCTAGATCAGAAGAACAACGAGGATAAGTAATATTAATTTTCTACCCATCAGCCTAAAGCTGGCAGGAAAATAAAGACTGAAGATTGAAGTTAGGGCTTTCCTGGCAATATTTTAGAATGGAACAGGAGAGGATTTCATACAGAAGGAAAAGAAGGGAACAGCAAGATCAAAGTTGGAAAGAAGTCCAGGAAGGTAGACTGTGAATATTATTAAGTCAGGAAACTCTTTCTAAGGTAGTGTGGTCAGAAACATAAAATGTTGCTAAAAGGTGAAGTAAATAGGAGGACAAGATCCAGAATTTGACACTTAGCACTTGGTGTTTGTTATCTCTAAGAGGAGTTTCAGAAGATAGAGGTCAGAGAAATGAAATGTTGATTGATCAGAGATGAACTGCAGGCAAGTAAGTGGAAGCCAGATTGGGCAATAAAGAGACAAGAAATGTGCTGATAAGAGGTGTATAGATTTTTATTGTTATTGGACTGGATAAGACTTCACTGTATTTGTTAAATGAGAAGAAGGAACTAATGAAGGAGGAGAGAGAGCGAAGAAATACTAGGGTAGCTAAGGCTATTTTAGAACTATCTAGTTTAACCATTCCAATATGATAATAATTTAAATTAAATATTCATTATTGAGTATATTTTCCGTTGGAATTGTGTTTATTTCTTAAGCCATAAAAATCTTACCCCCTCCCACTTAAAACAGAGCATTTACCCATATTTATCAGAAAGTTCTACTAGGAATAACTGTTTTTATAGTTGACAAACTTAGAAAAAATTCTTATAAAACAATGTTGAAAATCAAATAAGTTGTATTTACAAATAGGCATAGATATGAACTTTTACCAAATGATGTTTTTTCTGTAATTTGAATAAAGTTTTTAGTGACTCTAAGAATCAAGATGTAGGATAATTATAATAGTTTTTGTGCTTATTGCTCTAAAATTGACTTTTAAATTTTTCTCATTTTAACAATGTTTTTACACTTTGAGTGCTGCTTTCTAAACATAAACATGATATCAGAGCTTCTGAGAATTATCGTTATAGCTCAGAATCAGTTTATCCATATGTTCTGGTACTATACCTAACCAAGCTAATTCTAATAGCTTTCACTTTCATTTTCCATTCTAAGAGATATTATGATCTAGATAATAGGTGAAGAGAAATGGTATAGTCAAGGGTCACTTTCTTATTTCTTCACCTTGAAATAATAAGAATGTTAGTTTCCAACTTGAGTTTTTGGACCATATTCCTACTTCCAAACCACAAACATCTCTTGCAACTATAACCACTGTTACAGAAAGAAATGAGAAATATTTCTCATGGGAGACATGAGTAATCCACATTAATCCGGTGTAGTGTACATTGAGGAGATGACGTTTCAATTAGTATTTGTTATGTGAATTAGTCAAATGTTTTTTCTGCGTCTCTAG
Seq C2 exon
GATATCGACAGTGTGGTACAGAAGAATTTAGTTGTGCTGATGGGCGGTGTCTTCTAAATACTCAATGGCAGTGTGATGGAGACTTTGACTGTCCTGACCATTCTGATGAAGCACCTTTAAACCCAAAGTGTAAAAGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000168702-LRP1B:NM_018557:53
Average complexity
IR-S
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=90.5)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=87.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)