HsaINT0120119 @ hg19
Intron Retention
Gene
ENSG00000100767 | PAPLN
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:HGNC Symbol;Acc:19262]
Coordinates
chr14:73732078-73733336:+
Coord C1 exon
chr14:73732078-73732215
Coord A exon
chr14:73732216-73733208
Coord C2 exon
chr14:73733209-73733336
Length
993 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTAT
5' ss Score
4.29
3' ss Seq
TGGCTGTACTTGGTCCCCAGACA
3' ss Score
7.1
Exon sequences
Seq C1 exon
GCTGCGTTTGGACCAGAACCAGCCCCGGGTGGTGGATGCCAGTCCAGGCCAGCGGATCCGGATGACCTGCCGTGCCGAAGGCTTCCCGCCCCCAGCCATCGAGTGGCAGAGAGATGGGCAGCCTGTCTCTTCTCCCAG
Seq A exon
GTTTATTTGACTCCTCTCCCCTTCCTCCTATTCTGCCTCCAGCCCCACCTTATCCTATGGAGGCCACCGGGGAAGGGAGCTGCTAGCGCATGGTCATGGCCAGTCCTGAGCCGGACTCCAGGGCCTCTTGAGAGATGGAGCAGCTGGGCAAAGGGCTCCTTGGGTTGGCTAACATTTGAGTCTCTGGGCCTTTCCAGAATGTGGTTAGTGGACAGAAATAAGAGGCCAGCTAACAGAGGTGATGACGGAAGAAGAAAATGGAGTCAGAACACATTCCCAGCTATAACCATAATGGCTACCCTTTACTGAGCAGGCACTGAGTATGAGGCTTGTGCTCTATCACGTGACCTGCAAAAAAGCCATATTGAGCAGGTGCTGTTTTCCCCCCATTTTACACACAGAAGCTTAACATCACACAGCTTATAAGCAGCAGAACCAGTATTTGAGCCCATTAAATGAGTATAGCAAAAACTAGAAACCCAAACCGAAATTTTGTATCAGAAAACTTGAAATGGTTTATACAGTTAAGCTTAAAAGCCAGACATTTTCGGCCAGTCGCAGTGGCTCACGCCTGTAATCCCAGCACTATAGGAGGCCGAGACGGGGGTGGATCACGAGGTCAGGAGTTCAAGACCAGCCTGTCCAAGATGCTGAAACCCCATCTCTACTAAAAATACAAAAATAGCCAGGCGTGGTGGCACATGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGGAGAATTGCTTGAACCTGGGTGGCAGAGGTTGCAGTGAGCTGAGATCGCACCACCGAAAGCGCCAGCAGCTGCAGGTGTAAAGTCTGAGGCCAAATGGTCCTTCTGTCAGACCCCACCAAACACTAGGGGATGCTTAGCCTCTCACCAGGGACCTAGAAGACCTTGTGTTCCCTCCCTGACCCCATGCTCGAGGGACGGAGCTGGAGGAGAGGGGAGGCTCCTTGGGCTGGAGCCAACTGGCTGTACTTGGTCCCCAG
Seq C2 exon
ACACCAGCTGCAGCCTGATGGCTCCCTGGTCATTAGCCGAGTGGCTGTAGAAGATGGCGGCTTCTACACCTGTGTCGCTTTCAATGGGCAGGACCGAGACCAGCGATGGGTCCAGCTCAGAGTTCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000100767-PAPLN:NM_173462:22
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.889 A=NA C2=0.193
Domain overlap (PFAM):
C1:
PF0767911=I-set=PU(50.0=89.4)
A:
NA
C2:
PF0767911=I-set=PD(48.8=93.2)
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:
CTGCGTTTGGACCAGAACCAG
R:
CAGAACTCTGAGCTGGACCCA
Band lengths:
264-1257
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)