HsaINT0120126 @ hg19
Intron Retention
Gene
ENSG00000100767 | PAPLN
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:HGNC Symbol;Acc:19262]
Coordinates
chr14:73716692-73717738:+
Coord C1 exon
chr14:73716692-73716822
Coord A exon
chr14:73716823-73717614
Coord C2 exon
chr14:73717615-73717738
Length
792 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
TCCCGCATCTCTGCCCACAGGTT
3' ss Score
10.79
Exon sequences
Seq C1 exon
CCCCAAACAAGTGTGAACTGAACTGCATTCCCAAGGGGGAGAACTTCTACTACAAGCACAGGGAGGCTGTGGTTGATGGGACGCCCTGCGAGCCTGGCAAGAGGGATGTCTGTGTGGATGGCAGCTGCCGG
Seq A exon
GTGAGTGGTGCCCCAGCCCCTCCCTGCCTCCGGGCTGCCTGGGGGCTCAGTGCGGGTGTTTCCCTGTCCATCACCCATAGGCCCAGGTAGCTGCCATGAGCTTGGTGTCTTCTCAAGTTACCAGGACACCAAGCCCAGCTCCTAGGGTACCTTGCAGGCATCACAGATGCCCTATGGCCCCTCACCTTCATCCTTGGAGAACGCTAGCCCTACAATAAGAGAAACCCTCTGGGTGGCAGAAATCCGGCTAAAACCGACTTCAGAAAAACAAACAGCAGGGACAGCCGCAGGCGCATGAATGAGGTGCCACTCGGCTTTCCTCTCCTTGGGTCCAGCATCAGGATCTGGCCCATTCTTCCCAGGAGGTGTGGAGGTGGCCGCCAGCTGCTCCGACCTTCTGCTCCCTAGAAAGGGAATTCCCAGGGAAAGGGGGCCTCATTCCCAGGAGTTCTAGCCACCGGGGGTTGTCTCTGATTCGTCTTGGTTTGGGACTTACCCTGAACCACTCCAACCTCCCCAAACCCACATTTGGGGAGCTCCGTTCAAACTCTGCGGGAGAGAGGTGGCCCCTCAAGGAAAACAGGGCATTATTACCAGAAGGGGAGATGGGAGCTGAGCAGACAGAGAAGTGGATTGTCAGCCACAGGCCAGTCCCCTGGCTGGTGGCTGAATCACTCCCGACCACCCTATCCTGCCTGGGCTGCGTGGGTGCTGGGGTTAGGATGCGACGGGGCCCAAGGCCTGATGTGGCCATGATGCCGTCTCCCCTGCCTCCCGCATCTCTGCCCACAG
Seq C2 exon
GTTGTCGGCTGTGATCACGAGCTGGACTCGTCCAAGCAGGAGGACAAGTGTCTGCGGTGTGGGGGTGACGGCACGACCTGCTACCCCGTCGCAGGCACCTTTGACGCTAATGACCTCAGCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000100767-PAPLN:NM_173462:6
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:
NO
A:
NA
C2:
PF059869=ADAM_spacer1=PU(12.1=33.3)
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:
CCCCAAACAAGTGTGAACTGA
R:
TCGGCTGAGGTCATTAGCGTC
Band lengths:
254-1046
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)