HsaINT0120108 @ hg19
Intron Retention
Gene
ENSG00000100767 | PAPLN
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:HGNC Symbol;Acc:19262]
Coordinates
chr14:73721221-73721726:+
Coord C1 exon
chr14:73721221-73721403
Coord A exon
chr14:73721404-73721584
Coord C2 exon
chr14:73721585-73721726
Length
181 bp
Sequences
Splice sites
5' ss Seq
CTAGTGAGT
5' ss Score
7.43
3' ss Seq
CTCCCACTCGTGGGCCTCAGTGC
3' ss Score
5.85
Exon sequences
Seq C1 exon
TGTTCTGTCAGTTGTGGCGTTGGCGTCCGGAAGCGGAGCGTTACTTGCCGGGGTGAAAGGGGTTCTTTGCTCCATACCGCAGCGTGCTCCTTGGAAGACCGGCCACCTCTGACTGAGCCCTGTGTGCATGAGGACTGCCCCCTCCTCAGTGACCAGGCCTGGCATGTTGGCACCTGGGGTCTA
Seq A exon
GTGAGTGCTCTCCACCCCCACACCTGCTGCCTGACCCTGGTCTCTGGCAGGTGGCTGCACCCGAGCGCCGTCCTTGGACCTGACACGCGCCACTGGGCACCTTCCCCTGCCTCTCTCCATGTGGGTCCCCGCCCCCAGCCTCGCCCTCAGCATCTCTCTCTCTCCCACTCGTGGGCCTCAG
Seq C2 exon
TGCTCCAAGAGCTGCAGCTCGGGCACTCGGAGGCGACAGGTCATCTGTGCCATTGGGCCGCCCAGCCACTGCGGGAGCCTGCAGCACTCCAAGCCTGTGGATGTGGAGCCTTGTAACACGCAGCCCTGTCATCTCCCCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000100767-PAPLN:NM_173462:12
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=0.250
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=PD(81.8=73.8),PF0009014=TSP_1=PU(13.7=11.5)
A:
NA
C2:
PF0009014=TSP_1=PD(82.4=87.5)
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:
GGGGTTCTTTGCTCCATACCG
R:
GCGTGTTACAAGGCTCCACAT
Band lengths:
246-427
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)