MmuINT0075924 @ mm9
Intron Retention
Gene
ENSMUSG00000004894 | Hapln2
Description
hyaluronan and proteoglycan link protein 2 [Source:MGI Symbol;Acc:MGI:2137300]
Coordinates
chr3:87827143-87827562:-
Coord C1 exon
chr3:87827446-87827562
Coord A exon
chr3:87827326-87827445
Coord C2 exon
chr3:87827143-87827325
Length
120 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
CCCACCCCCTCCTCCGCCAGCGT
3' ss Score
7.44
Exon sequences
Seq C1 exon
GTGTGGTGTTTCCGTACCAACCCAGCCGAGGCCGCTACCAGTTCAATTACTTCGAAGCGAAGCGGGCGTGTGAAGAGCAGGACGGACGCCTGGCCACTTACGGCCAACTCTACCAGG
Seq A exon
GTGAGCGGCGGATCCCCGGCTGGAGGCCCCCTAGCTGCACATCGACCCCGGCGAGTTTGCGGGAGCTAGAGTCTGGCTTGTGCTGGTGACTCCCGTCCTCCCCACCCCCTCCTCCGCCAG
Seq C2 exon
CGTGGACCGAGGGGCTGGACTGGTGCAACGCCGGCTGGTTGCTCGAGGGCTCCGTGCGTTACCCTGTGCTCACCGCGCGGGCTCCGTGCGGCGGCCACGGGCGGCCAGGCATCCGCAGCTACGGGCCCCGCGACCGCAGCCGCGACCGCTATGACGCCTTCTGCTTCACCTCGGCCCTGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004894-Hapln2:NM_022031:5
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=0.081
Domain overlap (PFAM):
C1:
PF0019312=Xlink=PU(41.1=97.5)
A:
NA
C2:
PF0019312=Xlink=PD(57.9=88.7),PF0019312=Xlink=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGCCGCTACCAGTTCAATT
R:
CAGAAGGCGTCATAGCGGTC
Band lengths:
253-373
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: