HsaINT0120115 @ hg19
Intron Retention
Gene
ENSG00000100767 | PAPLN
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:HGNC Symbol;Acc:19262]
Coordinates
chr14:73730353-73731043:+
Coord C1 exon
chr14:73730353-73730490
Coord A exon
chr14:73730491-73730918
Coord C2 exon
chr14:73730919-73731043
Length
428 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
TCCCACACCACCCCACTCAGGCA
3' ss Score
2.55
Exon sequences
Seq C1 exon
GATTAGCTTGGCAGGTGTGGAGCCCTCGTTGGTGCAGGCAGCCCTGGGGCAGTTGGTGCGGCTCTCCTGCTCAGACGACACTGCCCCGGAATCCCAGGCTGCCTGGCAGAAAGATGGCCAGCCCATCTCCTCTGACAG
Seq A exon
GTGGGTGAGAGTCCCCCCACCTCCTCTGACAGGTGTGACAGCCCCCCTACCTTCCCTGACAGGTGTGTGTGACAGCTCCCCCACCTCCTCTGATAGGTGTGACAGACCCCCTCCTCCTTTGACAGGTGTGTGTGACAGCCCCCCTACCCCCTCTGACAGGTGTGTGTGACGGCCCCCCGACCTCCTCTGACAGGTGTGTGTGACAGCCCCCCGACCTCCTCTGACAGGTTCACGTGACAGCTCCCTCCACCTCCGCTGACAGGTGTGTGTGACAGCCTCCCCTGAAGCATATTCCCCCAGCCTCACTTGGGGTGGGAGGGTGCTCTGTAGACTCTGGTCCCCTCTGGCACGAGCACCGAGGCGGAGGGAAGACTCACTGTTGCCCTTGGGAGCCCAGAGCTCATGTCCTCCCACACCACCCCACTCAG
Seq C2 exon
GCACAGGCTGCAGTTCGACGGATCCCTGATCATCCACCCCCTGCAGGCAGAGGACGCGGGCACCTACAGCTGTGGCAGCACCCGGCCAGGCCGCGACTCCCAGAAGATCCAACTTCGCATCATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000100767-PAPLN:NM_173462:19
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.599 A=NA C2=0.556
Domain overlap (PFAM):
C1:
PF0767911=I-set=PU(50.0=87.2)
A:
NA
C2:
PF0767911=I-set=PD(48.8=93.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATTAGCTTGGCAGGTGTGGA
R:
TATGATGCGAAGTTGGATCTTCTGG
Band lengths:
262-690
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)