MmuINT0075931 @ mm9
Intron Retention
Gene
ENSMUSG00000007594 | Hapln4
Description
hyaluronan and proteoglycan link protein 4 [Source:MGI Symbol;Acc:MGI:2679531]
Coordinates
chr8:72608319-72609043:+
Coord C1 exon
chr8:72608319-72608439
Coord A exon
chr8:72608440-72608680
Coord C2 exon
chr8:72608681-72609043
Length
241 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
CCTGATTGGTCGCCCCGCAGAGG
3' ss Score
7.66
Exon sequences
Seq C1 exon
GCGTGTGCTCCAGGAGCCCTCGGTCACCGCGCACTCTGGGCCGTGGCCTGGGGACTCCTGCTGCTGGTCCCCGTGCTCGCAGGGGCGCAGCGTGGCAGGAAGAAAGTCGTGCACGTGCTGG
Seq A exon
GTGAGTTTTGTGGGAAGCTCTGGTCATCCCCTGCAATCCCCAATACACGCGTGCGCGCGCGCGCGCGCGCACACACACACACACACAGCGGTGGCCTAGAGTGAACGATGGGAGTGGGATGGGGTGGCGGATTGCCATGGTCCCCTACATTCAATCTCTGAGCTCCTTTCCCATCCTAGACCCACATCCTCTCCCTGAGGGACCCTACCGCACCTTTGACCCCTGATTGGTCGCCCCGCAG
Seq C2 exon
AGGGCGAGTCCGGTTCCGTGGTGGTGCAGACGGCGCCGGGGCAGGTGGTGAGCCACCGCGGTGGTACCATTGTCTTACCCTGCCGTTACCACTACGAGGCGGCCGCCCACGGTCACGACGGCGTCCGCCTCAAGTGGACGAAAGTGGTAGACCCTTTGGCTTTCGCCGATGTCTTCGTGGCTCTGGGTCCCCAGCATCGAGCCTTCGGTCCCTACCGAGGGCGGGCCGAACTGCAGAATGACGGACCTGGGGATGCCTCCCTGGTCCTCCGAAATGTCACCCTTCAGGACTACGGGCGCTACGAGTGCGAGGTCACCAATGAGCTGGAGGATGACGTCGGCATGGTCAAGCTGGATCTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000007594-Hapln4:NM_177900:2
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=0.025
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0768612=V-set=PU(98.3=95.1),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:
AGGAAGAAAGTCGTGCACGTG
R:
GTGACATTTCGGAGGACCAGG
Band lengths:
305-546
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: