HsaINT0120121 @ hg19
Intron Retention
Gene
ENSG00000100767 | PAPLN
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:HGNC Symbol;Acc:19262]
Coordinates
chr14:73733431-73735431:+
Coord C1 exon
chr14:73733431-73733539
Coord A exon
chr14:73733540-73735264
Coord C2 exon
chr14:73735265-73735431
Length
1725 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
CAGTGTCCTCTCTCCTCCAGGAA
3' ss Score
11.09
Exon sequences
Seq C1 exon
GGGAGCTGACAATCTCAGGACTGCCCCCTACTGTGACAGTGCCAGAGGGTGATACGGCCAGGCTATTGTGTGTGGTAGCAGGAGAAAGTGTGAACATCAGGTGGTCCAG
Seq A exon
GTAAAGGCTCTATTCCAAGTTGTCCCTGTCCCCAGACCTTCACAACCTCAGGTGTGGGTGTCCACCTTTCTGCCAGGGATGTCACTGTCACCACTGCTTCCATTCCGGCTTCCAGGCCTGGTGCCAGGGGAGAGGGCTGCAGCACCCTCATCCCTACAGAGCAAAGCTCTGTAGGGCCACTGGCTCTCTGCTGGTTGGGCTACACTAAGGTTTCCTAACCTCAGCACTGCTGACAGTTTGGAGCTGGTAAGTTTTGGTTGCTGAGGGCTGTCCTGTGCTTTGCAGGATGTTTAGCAGCATCCAGGGCATCTACCCACTAGATGCCAGGGGCACCCTCCCCAAAGTCATGACAATAAAGAATGGCTCCAGACCCACTGCCAAATGTCCCCTGGTGGCAAAATCTCTCCTGGAGCTGTGAACCACTGGACTACACTCAGCTTTGGGGACTTTGGTGGTCTTTTACCCTAGATCAATTGGTTTTATATTTGTCCATTCATTTAGCAGCCATTTTTTGCCTCCTCCTTCCCTGTAATGTGTCAGGACTAGGCTAGGTTCTGGGGATCCTGGGGTCACCTGAGCCCCCAGAGTACTCCCGGGCAGATGGCCCAGTGTCCCAGGAGCTCCAGATGTGTTTTGTTGCAACTGCTGTCTGTGCACAGAGGAGTGTCAAGGAAGAGGGCCAGGAAATGACTTTGGCTGCACCTTAATAGCTAAGGATGGCAAAGGATGTTCTTGGTAGAGGAAGCAGCAAGTGCCAAAGGTGGGCATTTGAGAAAGGACACCAGGATAGGAACCGGCCTGTGCACTGGCTGGGAGAGGTGACGCGATTGCGGAGGGCATCTGTGTCTTGTGTGGCCTTGAGCCCAGGGAAGGCGGTGGGAGCCGCTAGAGGTGTCCCCACTGGTGTGCTCAGTCCAGCCATCCCCTGATCAGCCTGTCAGGCCTGCTTCTCCATGTTGGCCTCTCCTGGATCTTTCCAGCAGCAAACATGCATAGAACTCCCCTCTTCACAACCACCTTCCATTGAGCCTCTATGTCCCTGCAGACCCTATGCTGACATAGTGTCCCCTTTACAGCTGTCCATGTTGGTTGCCTCTGCCTGTTCATCTCCCTACTCACTTCTCAGGGCCTGCAGTGGGGCCGCATGTCAGCCCCTGTTCCAGGACACTGTCCTGGCCAAGGTCACTGCCTCTCTCCCTAACTCCACTGGACACCTTGCAGTCTTTACGTGACCTGTAGTGTCGTTCTGCTTGCCGTATGCTCCTTCTTGAAATTCTCCCTTCCCTCTGCTCCAGGAACTACTGTCTTCTGCTGTGCCTCAGGGCCTGTCCTTGGTTTCTCCCCGTGTGACTTGGACCACCTCATAGACATGCACTTCGCTGCGTCAGTGCGATGCTGACACACTATCTGGGTCTGGACTCTTGAGCTCCAGACTTCAAATCTGAGGCCTCCTGCTATCTCACAGGCACCCCAAATTTGAAATAGCAGAAAACAACCTCGCCATTCACCCCAGCCTTGGATCTCCCAAGGTTGGAGGGGCACCATCATCACCCAGTAACCCAACCTAGAAACCTTGGTCATTCTTGATTTCTCCCTGTCCTCCACCTGTTTGCTCTCAAGGGGTGGGAACGGTTGGCTCTGGAATGGCCTTTGATTACCTCTTCCCTCTGTCTCCCAGACCTCCAGAGGCCCTTGATGGCTCTCCCAGTGTCCTCTCTCCTCCAG
Seq C2 exon
GAACGGGCTACCTGTGCAGGCTGATGGCCACCGTGTCCACCAGTCCCCAGATGGCACGCTGCTCATTTACAACTTGCGGGCCAGGGATGAGGGCTCCTACACGTGCAGTGCCTACCAGGGGAGCCAGGCAGTCAGCCGCAGCACCGAGGTGAAGGTGGTCTCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000100767-PAPLN:NM_173462:24
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.108 A=NA C2=0.228
Domain overlap (PFAM):
C1:
PF0767911=I-set=PU(39.1=91.9)
A:
NA
C2:
PF0767911=I-set=PD(59.8=91.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGAGCTGACAATCTCAGGAC
R:
TGAGACCACCTTCACCTCGG
Band lengths:
272-1997
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)