HsaINT0120106 @ hg19
Intron Retention
Gene
ENSG00000100767 | PAPLN
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:HGNC Symbol;Acc:19262]
Coordinates
chr14:73719357-73720669:+
Coord C1 exon
chr14:73719357-73719483
Coord A exon
chr14:73719484-73720461
Coord C2 exon
chr14:73720462-73720669
Length
978 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGA
5' ss Score
7.4
3' ss Seq
CTGATTCCCCCTCCTGCCAGCTG
3' ss Score
9.41
Exon sequences
Seq C1 exon
GTCACCAGTCCCGCCTGGTGTTCTGCACCATCGACCATGAGGCCTACCCCGACCACATGTGCCAGCGCCAGCCACGGCCAGCTGACCGGCGTTCCTGCAATCTTCACCCTTGCCCGGAGACCAAGCG
Seq A exon
GTGAGACCTTGCCAGCCCCTCTACCCATGATGAGGCCCAAGAACTTGGGTGGGAAGGGAACAAGGCCTCCAAGCTGCTTTAGGTGTAGAACAAAGAGGTGGGGGTCCAGGGCCCCCCACGCTGTGGCTGGGGTGTGGGAGAGGTGGCAGCTCTTCCTGGGGGAGGCAGAGAATAGGCCTGAGCCCGGGGCTGGTCTCTCTGCTCTCCTGTGACCACGAAGTACTCAGAACACCTAGGCTTGGTGGCAGGAGGGTTGGAGAAGGTTCCAGAGGTCCCTGTCTGTCTGAGCCAGCAGAGGGTTTGGCTTGGCAGATGCCAAGGGGTGGGCCAGGGGTCAGGCCAAAGGGCCTGTTGGCATCGGCCATGGCTTTGTTCGTGCACAAAGGACCTCTTACCTGCACCGGCCTGGAGCGTGGCGCCTTGCTGGGGCCCAGCGAGTGTGTGGGAACAGGTAACCTGCAGGTCACAGGCTCCCCGCAGGGCTGGTGCCACCCTGTCACCGCTTGGCCTTGGTGGCAGCGGGCCTCCTGGGATGGTGGCGGACTTGGCTTTGCATGGGGCCACAGGGCTGCTCTTTCCTCTGGGTCCTTGCACCCGGGGCCTGGCAGAGCCGCTCCACGCATGGGTGAGCACAGCCTCTCCAGGAGCTGCCCCTTGACTAAGGTCAGACCGAGAGGAATGGAGTCTGACTGGGAGACAGGGACCTGGTGGGAAGGAGAAAGGGGGATAGGGTTGAGGACAGGAAAGCCAAGGGGGAGGCGCAGGGCCCCGAGTTGTGGGGAGCGCTCAGAGAGCCAGGCCCGGTGGTGGGGATGCTAAGGAGCGCCTGGGTCGTAGCCTTTGTTCAGGCTGGAGGCTCAGAGGATGGGCTGGGGTGGGGGTCCTCAGGCCACCTGTGTGAGTGAGGGCAGAAACCCTCAGGGCTGGGTTTCTGCCCATGCTCCTGGGCCAGCCTTACCTGATTCCCCCTCCTGCCAG
Seq C2 exon
CTGGAAGGCAGGGCCATGGGCACCCTGCTCAGCCTCCTGTGGAGGAGGCTCCCAGTCCCGCTCCGTGTACTGCATCTCGTCTGACGGGGCCGGCATCCAGGAGGCCGTGGAGGAGGCTGAGTGTGCCGGGCTGCCTGGGAAGCCCCCTGCCATTCAGGCCTGTAACCTGCAGCGCTGTGCAGCCTGGAGCCCGGAGCCCTGGGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000100767-PAPLN:NM_173462:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.101 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=PD(69.8=86.0)
A:
NA
C2:
PF0009014=TSP_1=WD(100=82.9),PF0009014=TSP_1=PU(14.5=11.4)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGTCCCGCCTGGTGTTC
R:
CACAGCGCTGCAGGTTACAG
Band lengths:
302-1280
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)