MmuINT0075761 @ mm9
Intron Retention
Gene
ENSMUSG00000025075 | Habp2
Description
hyaluronic acid binding protein 2 [Source:MGI Symbol;Acc:MGI:1196378]
Coordinates
chr19:56387359-56388720:+
Coord C1 exon
chr19:56387359-56387456
Coord A exon
chr19:56387457-56388464
Coord C2 exon
chr19:56388465-56388720
Length
1008 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TATCTTCATGTGCCCTATAGACA
3' ss Score
6.66
Exon sequences
Seq C1 exon
AAACCCAGATGGAGACCACAAACCCTGGTGTTTCGTCAAGGTGAACAGTGAGAAGGTGAAATGGGAATACTGTGATGTCACAGTCTGTCCAGTGCCTG
Seq A exon
GTGAGTCTGTGCTACCCACAAGGCCTGGGGAGGAAACGGGTGGTCTTGGGACAACCTGGTGGAAGCCCTGGTGACTGACCACTCCTACCCTTGACCCTTGCTTCACAAACAAACATATCACTCTTCCCAGGTTTCTGTAGCCCTCAGGACAATGAGCTAGCCTCGACACTTCTATCATCCCAGGTTAGATCTAAAACCTTTTTTCCTAACTCCAGGTCAGTACCTCAGTACCCTCAGCATCATACGCTGTGTGTGTCAGGTGGACAATGTCCATCACTGGCTGGGCCCTTGTGGCCTCTCAGGATGAGCTATGGTCTGAAGTCCAGCTTCTCGTTCTTTCTGACAGTCTTCATTAGCCCATCTCTCCACCCACATCTGAAAGAACGTGCCGATCTTTCTGACCAAAGGAATTCTCTCTCTGTTTCACACACGCAGCACTATTCTGTGGGTACCTCTCTGTAATGCTCGATCTCATATCTGCTTTTGTTTGTTTTTAACCATTCTTTGAGAACTGACCCAAGCATTCCTTTCTCTGACAAGCCCCCTTGAGCTCTTGAATTGGATGTTATATCTCCCTCTGTACAATCTCAAGGAACAGAACAAGCTTGCAGCCGTATAACCCATACACCCTTTGCTTGCCACAAATTTCTGGGAGAATCTCCTACCTCCCCTAATATACTAAAAAAAAAAAGCCTGAAAACATGCGTTAATGATGACATAATATGCATGAACATGATGGGTTTGTATATTTTTCGTATATGTTTGTACAACCTAGGAGTAATGCACTTCAAAATATGCAGATAAAAGCAACATCTTTCACACCAATTCTATGAAGTTGCTTTATATTACCTAAGTCATCCGACACGTCTCAGTCACTCACCAAACAACATATCGAAGGTGTGCCATCTCTTGGCTCTGAGCATTTGGTCAACTTGTGGTCAGAGTTATGACTCCAGCTATGTCCTCCAAAGGAACGGCTTGTGTGGTTTATCTTCATGTGCCCTATAG
Seq C2 exon
ACACCCCTAACCCAGTGGAAAGCCTTCTGGAGCCTGTGATGGAGCTGCCAGGGTTCGAGTCCTGCGGGAAGACGGAGGTAGCTGAACACGCAGTCAAGCGTATCTACGGGGGCTTTAAGAGCACAGCAGGCAAGCACCCGTGGCAGGTGTCCCTGCAGACCTCACTGCCGTTGACCACCTCCATGCCCCAAGGCCACTTCTGTGGGGGCGCCCTGATCCACCCCTGCTGGGTGCTCACTGCAGCCCACTGTACCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025075-Habp2:NM_146101:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.006 A=NA C2=0.013
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PD(34.9=85.3)
A:
NA
C2:
PF0008921=Trypsin=PU(21.5=59.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGGAGACCACAAACCCTGGT
R:
GTACAGTGGGCTGCAGTGAG
Band lengths:
343-1351
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: