HsaINT0074177 @ hg19
Intron Retention
Gene
ENSG00000132702 | HAPLN2
Description
hyaluronan and proteoglycan link protein 2 [Source:HGNC Symbol;Acc:17410]
Coordinates
chr1:156589086-156589950:+
Coord C1 exon
chr1:156589086-156589327
Coord A exon
chr1:156589328-156589809
Coord C2 exon
chr1:156589810-156589950
Length
482 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
GGAGCAACTGTGTTGAACAGGGG
3' ss Score
0.88
Exon sequences
Seq C1 exon
TTGCCATTACCCACAGAATAAAGAAAGGGGCCCTGTTATTCAACAATAGGGGAAAAGACAGAGACAATGGGAAATTGTGCTTCCGATGGGGTGGGGACTGAGAAGGAAAGGACAGACAGACAGACAGACAGGGGGTTGTACAGAAGAGGTCCGGTTTCTTGAAGCAGCTGGAAGTCCTGGATAGTTCCCACCTGAAAGTCTGTTTGCAAAGGCAATGCGCACTCAGGCACCAGAGGGCAGAG
Seq A exon
GTGAGTACTCTGTTGTGGGGAGAGGGGAGATGGGGATGCTGCTTAGATGAGGCGCATATGGAAAGGGAGGCAGCTCGAGCTTGGCAGTTATGGATCTTTGAGCCACATTTAGAGTTCATCCCCATCCCCATCAGTCCAACACCTTCATATCCACCGATCAATCTACACCTCTCTGGTTCAAAGGCATCGAGAAAAAATGAAGCACCTCACTTTCTGCACTCTTCCAGGTCATCATTCCTGGGTTGCTCCCTTTATTCCACTCCCCTTCATGGGTTCCCAGCCCTCATCCCAACCCCAGCATCTTCCCCTGGTCCCGGAATAGTGATTTCCACAGATATAGTCACAGGGCTGGACACAGGTCTCTTAACATGGCTTAGTGGACTGATGGGGGTGGGGGTCGTTCTTGGCACCTTGGCTTCTTCTTTGAGCACAGGACAGAAGCTTTTCCTCAAAGGTGCAAAAGGAGCAACTGTGTTGAACAG
Seq C2 exon
GGGCTCAAGTTCCAGGGTTTTAAGGTGCTTGGAACTCCCAGGAGCCTGGCAAACCTTCATCCAGAACCTCTTCCTCAAGCAAGACAAAAAGCTGCTAAGCACTGCTCCCTCCGTCTCTGTGAAGAGACCAGCTTCTAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132702-HAPLN2:NM_021817:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGGGCCCTGTTATTCAACAA
R:
TCTTCACAGAGACGGAGGGAG
Band lengths:
342-824
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)