HsaINT0096381 @ hg19
Intron Retention
Gene
ENSG00000168702 | LRP1B
Description
low density lipoprotein receptor-related protein 1B [Source:HGNC Symbol;Acc:6693]
Coordinates
chr2:140988996-140992453:-
Coord C1 exon
chr2:140992355-140992453
Coord A exon
chr2:140990896-140992354
Coord C2 exon
chr2:140988996-140990895
Length
1459 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGA
5' ss Score
4.74
3' ss Seq
TTATTTTTTTTCTCCTTCAGCCA
3' ss Score
9.89
Exon sequences
Seq C1 exon
GCCAGGTACATAGGGGGAGGACCCAGTGCTTTCAAGCTTCCACACACAGCGCCGCCCATCTACCTAAACTCTGATTTGAAAGGACCACTAACTGCTGGG
Seq A exon
GTGAGAGAAGAATATTCGTTATTTCATGTCCGTTTCATCACAGAACCCTCACAATCAAAGACTAATTACTAGACTTAGAGGCTTGTTTTTAATTAAGTTTTTAATTAACAAGAGATTTCAAAATAGCATTTAAATTGGGGGCTTATGTTATGTGTCCTGTCTATGCAAGATTACATCTAAAACATTATTTTAGGCAAGCCATTAAGTAGAAATATCTCTTCTACTGGATTTGGAAATGTTATTGTCCCTTTACAGTGAACATGAGTATTTGTTATTCTTAGCAAAGAAGCTCTAGCCAGAAATTAAAACTGAATAAACTTTTGATTTTATTCATTTCCTCTCATAGTGGTTTATTTAATATATACAAATTTGACGTGCAGTTAAATAGACTATACTTTAAAATGTGTCATCATATTGAGAAATTACAGACGGTCTAACAAAACCACTCTCAAAAACATGTTTCAATTAAGTAACTGGTGTTTAGAGAAAGCTGTTCTGTCTAAAGTTACATAGTTCATTTTAAGCAGAAGAGGAATAAAAATATGCATTATCAAGATTCCTAGGGATGAGAATTCTCTCCCTTATCGTCTTTCCCATCAACTGTTTTCATCCTCATTTTCTATCATGTTTGTCTCAATTGCATGGCTCAAAGATTATAATGTTTCCTTGTTGTAACTAAGATTTAATGTACTGTTTTTGGAAAGACGAAACAAAAAATAAGGAAAACAAACACTAGGCAAAATTTTCTTGGGATAAACTGCAATTTGTTAAATAGTGAACATTGTATGTATATGTTTTCCAACTCAAAGAGGTCAGCTGCTGCATGCCTCTAATTCTACTTCAAAATGCTATGTTTGTGAAACTTAAGATGACTGTGTACATCACAATTCTTTGAAAAAGTCCAAAAATATTTCTAATAAGTACACACAGGTTGTTTGAGGCAAAAATATTGCTTTAAAAATCTGATACACTAATGCATTTCTTTACATTTTTGTTTACTTGTTTTTAAGTTCATGTTGAAAAATTATAAGCACCAAACAAATGTTTTTCTGAAAACACATCTTACTTGCCACGGATAGGCTTGTAATAGCAATAAGGGGGACAACACAAAAACTGAAAACATGACAATTTAGTTTCACATTTTATGCTTTTATAATAAAGTCTCAGTGAACATAGCTTTTACAAAGATTTTTTTCTGGCTTTTTGTATATGGCAAAGCTCCTCTTAGGTTCACAAGTTACTTGCAAAATGTAAAATTATGTTTCATTTAATACCATGCTTGAGTTGAGTAAAGTCTGTAAATGTAACATGTAAATAACCTTTAAATCATTACTATTTAATAAATTAAATGTATTGCATATAAATATTGTTACGATTAGGAGATGGACATTCTAGGAAGTAAATAATTAATGTGGCCAAGACCAGTAATAAAATTATATTTATTTTTTTTCTCCTTCAG
Seq C2 exon
CCAACAAATTACTCCAATCCGGTATATGCAAAATTATATATGGATGGGCAAAACTGTCGAAACTCCTTAGGAAGTGTTGATGAAAGGAAAGAACTGCTTCCAAAGAAAATAGAAATTGGTATAAGAGAGACAGTGGCATAATCAGTGATATCTTTTATATGCTGTATAAATGTATAAAATATAAGGATTACTTTTGTATGTTCCAACAGTATTATACTTGTTTTGGCATCAGCATTACCTCTTTCTTTATCTTTTTCCTGGTTAATTGTTTTCTGAGTTTTTTGGGTTTTATTTTTTGCTGATGACTATTGATTGACCATTTGTATGGTATTTTTATGAAAAAGAACTGCACTACAGTACAATTTACAACAATGCTGCTGATATGACACACCTTTGAATTTGTTAAAATTAAAAACAACGTATTCCTTTGTAGTGTGAATATGAGCAATCTATTTTATATGAACTTTTTTGGTTGTACTTAATCAACGAGGAGAATCTCTGCACTTTTCCATTATACGGTTTGAAGGCTGTAATACAGTGTCATATTATTTTTCTGTTTAAATTGATGGAAAAATGATTGAATGGTCAACTCTCTTCTTTGTGCCCATAAAGATCGATTCAGACTCTGCTGAAAATATATAGCTCTCACAAGTTCAGCATCACCTGCTTTGAAATTAGCCTTAGATTGCCAACCAATAGATGAGAATTTTGAGGAAAAAAATTAAAAATATGTAAAATTAATAATTTGCATGAACACAGATGACTACATTTTCCAAAACTTAGTGGACTCTATGTGATGTACTAAATGTATACACCTTGTAAGCAATAGTTATATTTAGGTGGTAGAACATAGCAAAAATATAACCGAAAGTTGGCCGACTGCACTTGCTATGGAATAAGACCTTTTATTCTCCCTCAGTCTCGAGATAAATAGCCAGCCTAGAGCACAACAGGGCATTGGGTACTTGCATCTTAGGTATTTCTTCCCAGTCACATCCATTTTGTGGAAGATTAACCCAACCCCTTACACTACACTGAACACTAAAGAATAATATATAAGCACACAAATTGGTGACAGAATTTCAATTACGTGAACGCATCCTCTTTGCTAGGTCAAAAAACAAAGGGCAAAGCAGACATTTTAGTATACAGAGTGATTGGCAAATATTTTCAAGATTTAATATGAGCAACCCATTATTTGCCCTATCCAAAATATATTCAAGGGCCTTCCAAGTTGTAGAAGAACAATGATCTTCCCATAATCAAAAGTGGAGAGTCGAAATGCTGTGCCAGTTGCTCTGGTATTCAGGTTTCTCTGGGTTTTACAGAACGCATGGACCCCATTCACGTTTGGTTTGTTTATCTTCAAATTTGAGTTGAAACGAGTGCGATTTATTTAAGTTGTATATAAAAATAAAAGGATAGCATTTTTATACAAATATCTTTAAAGGCACAAAAGATTTATTCACAAGTTTTGGAGGGCTTTTTGTTCCTCTGATAGACATGACTGACTTTTAGCTGTCATAATGTATTAACCTAACAGATGAAATATGTTAAATATGTGGTTGCTCTTTATCCCTTTGTACAAGCATTAAAAAAACTGCTGTTTTATAAGAAGACTTTTTGTTGTACTATGTGCATGCATACTACCTATTTCTAAACTTTGCCATATTGAGGCCTTTATAAACTATTGATTTATGTAATACTAGTGCAATTTTGCTTGAACAATGTTATGCATATCATAAACTTTTTCAGGTTCTTGTTTAAGTACATTTTTTAAATTGAACAGTATTTTTCATTTTGGTTATAATATAGTCATTTTGCCTATGTTTCTACAATGAAGTGTTAAATACTTTATAAAAAATTGTTGACTGACTTATTTAAATGAAATTCTACATAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000168702-LRP1B:NM_018557:90
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.043
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGGTACATAGGGGGAGGACC
R:
AGAAAGAGGTAATGCTGATGCCA
Band lengths:
343-1802
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)