HsaINT0120127 @ hg19
Intron Retention
Gene
ENSG00000100767 | PAPLN
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:HGNC Symbol;Acc:19262]
Coordinates
chr14:73717615-73718544:+
Coord C1 exon
chr14:73717615-73717738
Coord A exon
chr14:73717739-73718371
Coord C2 exon
chr14:73718372-73718544
Length
633 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGG
5' ss Score
4.41
3' ss Seq
AGGCGGTCTCCTCTGCGCAGCTG
3' ss Score
6.85
Exon sequences
Seq C1 exon
GTTGTCGGCTGTGATCACGAGCTGGACTCGTCCAAGCAGGAGGACAAGTGTCTGCGGTGTGGGGGTGACGGCACGACCTGCTACCCCGTCGCAGGCACCTTTGACGCTAATGACCTCAGCCGAG
Seq A exon
GTGGGGGTGGTTCCGACAAGGGGCAGTTGCCTGCCCCCTTCCTTGCCTGTCCCTTCCTTGCCTGTCCCTGCTCTGGCCTAGACTCCAGGCCAAGTGGCCCTCATGGCACTGGAAGGCTCTGATCATATCAGGTCACATCTGAAAGGCCCCCTGTGGCCTTTGGTTAGGACTCGTGCCCGCTCGTGCAGTCCCATCTCCTGCTGCCACCGCCTGGATGCCCTCCCCATCCCTTCCCACTCCCAGTGTGCTCCGGGTGCCCTGAGCCTTCCCGCCACCCTGGCTTTTGTACTGCGGCCTCTTCTGCCAGGGTTGCCTTTCCCAGCAGCTCGGCCCTGTCTGGCTCTTGTGTACCCTCCCTGCCCCCATTCTGTGCTGTGTGGCACTTGGAGTCCTGTTTGAGTGGTGCCGGGAGAGGGATAGCCCAGCACACCCAGCACCTGCGTCTCTGCCCCCAGGCTACAACCAGATCCTCATAGTTCCCATGGGTGCCACCAGCATCCTCATCGACGAGGCTGCTGCCAGCAGGAACTTCCTGGGTGAGAGCCTAGGGTTAGGTCCTAGGCAGGTCTGGGGCTGCAGGGGGAGGTGCGGCACTGCTCCCTCTGGCTGACTGAGGCGGTCTCCTCTGCGCAG
Seq C2 exon
CTGTGAAGAATGTTCGTGGGGAATACTACCTCAATGGGCACTGGACCATCGAGGCGGCCCGGGCCCTGCCAGCAGCCAGCACCATCCTGCATTACGAGCGGGGTGCTGAGGGGGACCTGGCCCCTGAGCGACTCCATGCCCGGGGCCCCACCTCGGAGCCCCTGGTCATCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000100767-PAPLN:NM_173462:7
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=0.221
Domain overlap (PFAM):
C1:
PF059869=ADAM_spacer1=PU(12.1=33.3)
A:
NA
C2:
PF059869=ADAM_spacer1=FE(49.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTGTCGGCTGTGATCACGAG
R:
GATGACCAGGGGCTCCGAG
Band lengths:
294-927
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)