HsaINT0095631 @ hg19
Intron Retention
Gene
ENSG00000198670 | LPA
Description
lipoprotein, Lp(a) [Source:HGNC Symbol;Acc:6667]
Coordinates
chr6:160958887-160961215:-
Coord C1 exon
chr6:160961075-160961215
Coord A exon
chr6:160958994-160961074
Coord C2 exon
chr6:160958887-160958993
Length
2081 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTC
5' ss Score
7.04
3' ss Seq
TGCTAATACTTTCCTTACAGGCC
3' ss Score
8.77
Exon sequences
Seq C1 exon
GTCCTCAAGGCCTTCATCCTACAAGGTCATCCTGGGTGCACACCAAGAAGTGAACCTCGAATCTCATGTTCAGGAAATAGAAGTGTCTAGGCTGTTCTTGGAGCCCACACAAGCAGATATTGCCTTGCTAAAGCTAAGCAG
Seq A exon
GTACTCGCTCACCTGTGGTCTTCACCCCACGCTGGTGAAGATATTTGCTTTATGTCTGGGTTTTATGGGCCATGGCCACTGCATGGCAGTGGGGAGGAACTGTCTATCACATGAAAGGCTCAAGGGCTTTGGGGACAGCATCAATCTTCAACCCCAGCCCTGCCACATGTTAGTTGTGCTCTTTAAAAAGGCAGAAGGATTCGTTTCCTCACGTGGAAAAAGAGATACCCTGTTACCCGTAAAACTTACTTAATGTTCACCAGTTCATCCACATTCATGATCAGGGAAAGGTTGTTATTCCAGGCTAACTATTCTCCTTTCATAATAATATGCTGGAGAGAATCAAATGAGATTGCATTTCAAAGCGCTTGAAAAACCACCATATCGAGCCATGCTTAGTGTGGGCGCCTCTAATCACTGCTATTCAGGAGGCTGACGAGGAAGAATTGCTTGAGCCCAGGACTTCAAGGCTGTAGGCAGCTATGATTGTGCCACTGCACTCCAGGCTGGGTGACAGATCAAGACCCTGTCTCAACAAAAGAAAAGAAAACAAAACAAATGAACAGAAATATTCCACAATGTCAAAAAAAAAAAAAACCCACACAACATACAATTTACAAATGCAAATAATAATATTATTGTTGTCTTCTTTGATTTTCTCTTTCCTGGTGAAATTTTGTTTTATTAAGCCTGACAAAGTGATACCTTTGCTTACATCACTTAAAGTTAGTCTATTTGGACCTAGGTGACAGTACAATCAGCTAAGAAACAGTATTTGTAGGAGAGGCAGGTTTGGGACAGGTGACAAGGCATGTGGGGTGCTCGCTGTGCTGGTGGCTCTGGAAGGCAGGGTGTCAATGCAGACAGGGATGAGCATGGCCTGGTTGGGAAGGCATGGGGCAGGCAGGAGCCTGAGCTGCTCTCCTGGGCCTGGTCACAAGCCCATGGCAGCTTCTCTGGGTCTGTGAACTGAGGGGTGATGTCCTGGAATCCTCTGACACTCTAGGAAGGAGAGAAGGGCCTTTCTGGCTCAGCCTTTATAAACAGTAGCTGATCTCCCTCTTGCTCCCCAGGGTCCTCCCCACCATCCCAGCAAATGTGCAAATACAAGATCTCTGCTCCTCATGGTCCTCAGAGAGCTGGGGTGTTCTGATGGCTTGAACAAGTCACTTAGGAAATGTGGGGTTTTGGAGGCATTCTCTGATAGGCTGATACGTTTTGAGTTTAGAGTTCCCACCGCACATCCCCACACCCCTAGAGTCTAGGGCATTTAGTGCTCCATGAGGGAACCTGTAGAGTGAGGACATCTGCATCACAGGCTGGGCCTTCTAGTGTCCAGAAGCAGAAAGTGTGTCTGCTTCAAAGTTGGTGCTAATGATGATTTTTGGTCAGAATACGGCATTTCTCATTTCCATTCCTTTATCCCCTTGAACTTACTAAAGTAGAATCAGGTCTAAAAACCAGAGTTCTAATCTTTAAGAGTCCCTGGGATTCTAAGGTATATGAATGTCCTTGGAAAACAATACCATTTAGTTCATGCAAGGTGCTTATTTCCCATCCTCTTTCATTTGATGTCTAGCATTTTACTGCATTCTTACCACCACGGTTTAGTAACATTCACGAGGAGGAAGTGGAGGATCCAGATGGAGCAACTTGCTCTGGGCACACAAGGCATTTGCAATTTTATACCCTCTTGATGATGTCTCAGCCAGACATTCTGCCCAGTCATCAATGCCCTCTTCAATTAATATGAAAGGACACACTTGGCATGAGATTCCAATCGTGCACAGAATATACATGAGAAGTGTGCCTTTGTCATCCCTACTTTCAAAGGCTAAGGCCACCCTCAGTTTCTTGCATGCAACTGATGCCTTTCAAATGAAACCTTACATCTGTGTAGTCCATAGGCAACCACAGGCAAATGTGAGGGTGAAACGCTGTGTTCTACATTGTTCTGTGTCAGTGAAGCAAGGCAGTGCCAGCTCAGAGGGCTCTGGGGCTTCAAGGCAGGGATGCCTGGTTGTAGGTACTGCCACTTCCAGCTGGGCAGTGAAACATAACTGCTAATACTTTCCTTACAG
Seq C2 exon
GCCTGCCGTCATCACTGACAAAGTAATGCCAGCTTGTCTGCCATCCCCAGACTACATGGTCACCGCCAGGACTGAATGTTACATCACTGGCTGGGGAGAAACCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000198670-LPA:NM_005577:37
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:
PF0008921=Trypsin=FE(22.0=100)
A:
NA
C2:
PF0008921=Trypsin=FE(16.8=100)
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:
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)