HsaINT0120113 @ hg19
Intron Retention
Gene
ENSG00000100767 | PAPLN
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:HGNC Symbol;Acc:19262]
Coordinates
chr14:73727864-73729535:+
Coord C1 exon
chr14:73727864-73728002
Coord A exon
chr14:73728003-73729057
Coord C2 exon
chr14:73729058-73729535
Length
1055 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
ATCACACCCATGCCCTGCAGCCT
3' ss Score
5.93
Exon sequences
Seq C1 exon
GTCCACAACACCCACCAGCCCCAGGCCCAGCAGAATGAGCCCAGTGAGTGCCGGGGCTCCCAGTTTGGCTGTTGCTATGACAACGTGGCCACTGCAGCCGGTCCTCTTGGGGAAGGCTGTGTGGGCCAGCCCAGCCATG
Seq A exon
GTGAGTGGACACCCCCTCTCCTCCTTCTCGATGGGTAGACTCTGCTCCCACCATGCCTCCAGCCCCCACCCAGGACCAAAGACCTTCCTACCAGCTCAGTTATTCATTCATTCCTACCACAAATGTTGATTGCCTGCTAGGTGCCAGGCCAGAGAGCAGTGCCAGAGTGTTCTCGCATCCAGCAGTTTGAACCTGTGGCCTTCTGGCTGCTTCTGGGAACTGGGGAGGGTGGGAGGTGGGGATCCCAAGGGCCTGGGAGGCAGTCTCGTGCTTGGGAGTCAGCCCCTTCTGAGGCAGAGCCAGTGCAGGGCAGTTAGTGCCGGGATGGGCAGGGGTGCCCTGACCCTGCCTGGAATGTGGGTGGAGTAGCAGGAGCTGAGTGCTGGAGGGAGGGTAGGGGTCAGGGAGGTCTTTGAGGTTGCAGCCCTGGATGAATGAGTAGAGCTGCTGGGAACCATCACGAGGACCTCAAAAGCCGGGCTAGGGCTGTGGTCAGGGCTCGCAGGAGGCACCCATGGTCATGTCTAAATGTGGAGAGATGGGTCAGGCCATGCTGGCGAGGGCTGCTGGAATGGCAGGCTGGGTGCTGGAGGTGGGCTCAGTGGCCAGTCAGTGCAGCATCCTGGGGACAAGGGCATGCCCTTGCTGGGCATCTTCACACGCCCTGGGTGGCTCAGGTCTGTGTCCCTATCACAAGCTAAGCAGGCAGGGTCACCCTCTGGGCTCACTTTGCATGTGACTTCAGGTGGTCTGGTGGCAGGGAAGGCCAAAGGTCCAAGGGAGCCGGCCCAGGGAGCCCTGGCCCTGACCTCCCAGAGGCTCTAGCTCTGTGGGTGAAGGCTGCTGTGGCACCAGCCGGGGGCAGGTCTGCACAGTGGACAGACTCTGGTGGAAGCATCCTGGATCCCAGGGCCAGGTCAGGCCCCCAGACAGGGGTGTAGACATGCTTTATAAGTGGGGAAGGGCCTGCTTCCTGAGTCGGAGGCTGAGAGGATGGAGGGTGCAGCTTTAGTACTGGGCACCTCAGTGACTTATATCACACCCATGCCCTGCAG
Seq C2 exon
CCTACCCCGTGCGGTGCCTGCTGCCCAGTGCCCATGGCTCTTGCGCAGACTGGGCTGCCCGCTGGTACTTCGTTGCCTCTGTGGGCCAATGTAACCGCTTCTGGTATGGCGGCTGCCATGGCAATGCCAATAACTTTGCCTCGGAGCAAGAGTGCATGAGCAGCTGCCAGGGATCTCTCCATGGGCCCCGTCGTCCCCAGCCTGGGGCTTCTGGAAGGAGCACCCACACGGATGGTGGCGGCAGCAGTCCTGCAGGCGAGCAGGAACCCAGCCAGCACAGGACAGGGGCCGCGGTGCAGAGAAAGCCCTGGCCTTCTGGTGGTCTCTGGCGGCAAGACCAACAGCCTGGGCCAGGGGAGGCCCCCCACACCCAGGCCTTTGGAGAATGGCCATGGGGGCAGGAGCTTGGGTCCAGGGCCCCTGGACTGGGTGGAGATGCCGGATCACCAGCGCCACCCTTCCACAGCTCCTCCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000100767-PAPLN:NM_173462:17
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.291 A=NA C2=0.650
Domain overlap (PFAM):
C1:
PF0001418=Kunitz_BPTI=PU(22.6=25.5)
A:
NA
C2:
PF0001418=Kunitz_BPTI=WD(100=33.1)
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:
CAGCAGAATGAGCCCAGTGAG
R:
ATCCGTGTGGGTGCTCCTTC
Band lengths:
345-1400
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)