HsaINT0120124 @ hg19
Intron Retention
Gene
ENSG00000100767 | PAPLN
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:HGNC Symbol;Acc:19262]
Coordinates
chr14:73712344-73712883:+
Coord C1 exon
chr14:73712344-73712404
Coord A exon
chr14:73712405-73712780
Coord C2 exon
chr14:73712781-73712883
Length
376 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAG
5' ss Score
8.27
3' ss Seq
ACTTCCCCTCCGCCCCGCAGAGC
3' ss Score
11.12
Exon sequences
Seq C1 exon
GAGAGATGGAGGCTCCAGCTGCGTGGGCCCCGCCCGGAGCCACCGCTCTTGTCGCACGGAG
Seq A exon
GTAAAGCTCACGGGGCGCGGGCGAAGGCACCAGCTTCCCCAGCCCCTCCTGGCCGATTTCCCCATTGGGATGCCCGCTCCTGGCCGCGGGCTGCTGGGTTGGCCCAGCCTGGGGTCCTCCCGCCAATCCACAGCAGGGCTGCGTGGGGGCCCCTTCCTCACCCTGCTCCCGGGGACTGGCCTTGCCCTCCACAGCCTAGAGCACCATGGAGGGGCACGCACAGGAGTTCGGGGGTCCGGGGGGCGGACTCCACCTCCGGCGGCTCCGATGGGGCAGGCAAGGGAGACTCCTGGGCTCCCTGGGCTCGGGCGGGGCGGGAGGTGGGCGGACCTCGGACTCCGCCCTCCTGGATCCCGACTTCCCCTCCGCCCCGCAG
Seq C2 exon
AGCTGCCCCGACGGCGCCCGGGACTTCCGGGCCGAGCAGTGCGCGGAGTTCGACGGAGCGGAGTTCCAGGGGCGGCGGTATCGGTGGCTGCCCTACTACAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000100767-PAPLN:NM_173462:4
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:
PF0009014=TSP_1=FE(40.0=100)
A:
NA
C2:
PF0009014=TSP_1=PD(2.0=2.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
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)