HsaINT0095626 @ hg38
Intron Retention
Gene
ENSG00000198670 | LPA
Description
lipoprotein(a) [Source:HGNC Symbol;Acc:HGNC:6667]
Coordinates
chr6:160547789-160548659:-
Coord C1 exon
chr6:160548478-160548659
Coord A exon
chr6:160547938-160548477
Coord C2 exon
chr6:160547789-160547937
Length
540 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
ATTTTTATTTTTTTCTACAGACT
3' ss Score
9.86
Exon sequences
Seq C1 exon
TGGCCTGACAATGAACTACTGCAGGAATCCAGATGCCGATACAGGCCCTTGGTGTTTTACCATGGACCCCAGCATCAGGTGGGAGTACTGCAACCTGACGCGATGCTCAGACACAGAAGGGACTGTGGTCGCTCCTCCGACTGTCATCCAGGTTCCAAGCCTAGGGCCTCCTTCTGAACAAG
Seq A exon
GTAAGAAGTCTGTGTCTTACCTTGTCTAGCACATACCTCTCTATGTGCTTGGACAACGGGATGAAAAGACATGAAAAACCACACTGATGCAGAAGCCTTTAGTGCTACACGGGAGCTCGAGTGTTGGTTGAGGTTCTGCCATGACCAAGGAAGTCTCAGTGCCGTCCCTGGGAAAGCCAGAGCTGTGATTTTTGGCACAACTTGTGGGAGTAGTGACTTTAGGACTGGCGCAAAACCTCCAGGGTGCTCAACTTAACCACTCACCTTATTCTAAAATGGGTTATTTCAGTGTCCCAGTCAAATTCCTATTCTAACATGCTGTCAACTGTGTGATTATTTCCAAGCCAATAAGCATTTCCAGTAATTTCTTAAAATAGTGTTCATTGCAGTCTTCAGCGTTGTGGCTCCTGAGGGATGTGGCCCCTGATTCTGTCGTCCTAGAGAAGCCTGACATGACTGCATTGATTCTGTATCGTCCTGGGTCTATGTGGCTGCCTGGCTGTCTGTAATCATCTGTTTTATTTTTATTTTTTTCTACAG
Seq C2 exon
ACTGTATGTTTGGGAATGGGAAAGGATACCGGGGCAAGAAGGCAACCACTGTTACTGGGACGCCATGCCAGGAATGGGCTGCCCAGGAGCCCCATAGACACAGCACGTTCATTCCAGGGACAAATAAATGGGCAGGTCTGGAAAAAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000198670:ENST00000316300:31
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.250 A=NA C2=0.200
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PD(44.9=56.5)
A:
NA
C2:
PF0005113=Kringle=PU(60.0=96.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCCTGACAATGAACTACTGCA
R:
TTTTTCCAGACCTGCCCATTT
Band lengths:
327-867
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