HsaINT0074180 @ hg19
Intron Retention
Gene
ENSG00000132702 | HAPLN2
Description
hyaluronan and proteoglycan link protein 2 [Source:HGNC Symbol;Acc:17410]
Coordinates
chr1:156593599-156594259:+
Coord C1 exon
chr1:156593599-156593952
Coord A exon
chr1:156593953-156594142
Coord C2 exon
chr1:156594143-156594259
Length
190 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
3' ss Seq
GGATCCCCGCCACCCCCTAGGTG
3' ss Score
5.8
Exon sequences
Seq C1 exon
CATCCCACCCGGGCCCCCACTACCTCCTGCCCCCCATCCACGAGGTCATTCACTCTCATCGTGGGGCCACGGCCACGCTGCCCTGCGTCCTGGGCACCACGCCTCCCAGCTACAAGGTGCGCTGGAGCAAGGTGGAGCCTGGGGAGCTCCGGGAAACGCTGATCCTCATCACCAACGGACTGCACGCCCGGGGGTATGGGCCCCTGGGAGGGCGCGCCAGGATGCGGAGGGGGCATCGACTAGACGCCTCCCTGGTCATCGCGGGCGTGCGCCTGGAGGACGAGGGCCGGTACCGCTGCGAGCTCATCAACGGCATCGAGGACGAGAGCGTGGCGCTGACCTTGAGCTTGGAGG
Seq A exon
GTGAGGCCCTTCCGCTCCCGCCCCATTCCTGTGTAGCAGCGGGTCCGCCTCGCCTGGGTCTCCCAGGGCTCCTTCCCAGTATCTCCTCCGCACCCCTGGGGACCCCAGCTCCCTCTCCCAGGCCGCGCCGCCCTTCCTCCCCCTCCGCTCCCATCCGCTGGCCCTCCCCAGGATCCCCGCCACCCCCTAG
Seq C2 exon
GTGTGGTGTTTCCGTACCAACCCAGCCGGGGCCGGTACCAGTTCAATTACTACGAGGCGAAGCAGGCGTGCGAGGAGCAGGACGGACGCCTGGCCACCTACTCCCAGCTCTACCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132702-HAPLN2:NM_021817:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.017 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0768612=V-set=PD(98.3=97.5),PF0019312=Xlink=PU(0.1=0.0)
A:
NA
C2:
PF0019312=Xlink=PU(41.1=97.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGATCCTCATCACCAACGG
R:
TAATTGAACTGGTACCGGCCC
Band lengths:
246-436
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)