HsaINT0120107 @ hg19
Intron Retention
Gene
ENSG00000100767 | PAPLN
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:HGNC Symbol;Acc:19262]
Coordinates
chr14:73720462-73721403:+
Coord C1 exon
chr14:73720462-73720669
Coord A exon
chr14:73720670-73721220
Coord C2 exon
chr14:73721221-73721403
Length
551 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGG
5' ss Score
4.94
3' ss Seq
TGACAGCCTTGTCCTTGCAGTGT
3' ss Score
7.61
Exon sequences
Seq C1 exon
CTGGAAGGCAGGGCCATGGGCACCCTGCTCAGCCTCCTGTGGAGGAGGCTCCCAGTCCCGCTCCGTGTACTGCATCTCGTCTGACGGGGCCGGCATCCAGGAGGCCGTGGAGGAGGCTGAGTGTGCCGGGCTGCCTGGGAAGCCCCCTGCCATTCAGGCCTGTAACCTGCAGCGCTGTGCAGCCTGGAGCCCGGAGCCCTGGGGAGAG
Seq A exon
GTCAGGCCCCTGGCCCGCATGGGGCTGGTGCTGGACCTGGGTAGCAGCAGGGAAGGGCTGGGGTCTTGTTCTCTGCTGTGGAAACCGAGGTCCTGGGAGGTAAAATAACCGGTCAGGTCATCTTGGAAGCTGTGGCCAAGGCTGGGACCAGAAGCAAGTGTCTGGATGAGTGGTCCAGGGCTCTTCCTTTTTCTCCAGGATCCCAGGGCAGGGCAGGAAAGGCCTGGGCAGGAAGAAGCTGGTGTGTTGTTTGGGGGCAAGGGAGGAGCTGGAAGTGTCTAGGCTGCCAGTCATTGCTTCTAGCACCTACGTATATTCAAGTTGCAAATGGATGGAAAATACAAATGGGTGACAACCTCAGTCTGTTGTCAGTAGCCATGGTTCAGGCTGTGTGACCTCAGGGGAGTGAGTCAGCCTCTCTGGGCCTGGGAAGGACATGGGCAGTTGGGTGCTATCTGCCTCCACACCAGGCTGGTGGGCCGCTAGCTGTCCGAACTGGCGTGGCTCCTGGGGGCAAGGCCGAGCTTCTGCTGACAGCCTTGTCCTTGCAG
Seq C2 exon
TGTTCTGTCAGTTGTGGCGTTGGCGTCCGGAAGCGGAGCGTTACTTGCCGGGGTGAAAGGGGTTCTTTGCTCCATACCGCAGCGTGCTCCTTGGAAGACCGGCCACCTCTGACTGAGCCCTGTGTGCATGAGGACTGCCCCCTCCTCAGTGACCAGGCCTGGCATGTTGGCACCTGGGGTCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000100767-PAPLN:NM_173462:11
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:
PF0009014=TSP_1=WD(100=82.9),PF0009014=TSP_1=PU(14.5=11.4)
A:
NA
C2:
PF0009014=TSP_1=PD(81.8=73.8),PF0009014=TSP_1=PU(13.7=11.5)
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:
GTGGAGGAGGCTCCCAGTC
R:
TAGACCCCAGGTGCCAACATG
Band lengths:
353-904
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)