MmuINT0075762 @ mm10
Intron Retention
Gene
ENSMUSG00000025075 | Habp2
Description
hyaluronic acid binding protein 2 [Source:MGI Symbol;Acc:MGI:1196378]
Coordinates
chr19:56313975-56315369:+
Coord C1 exon
chr19:56313975-56314230
Coord A exon
chr19:56314231-56315226
Coord C2 exon
chr19:56315227-56315369
Length
996 bp
Sequences
Splice sites
5' ss Seq
CGAGTAGGT
5' ss Score
5.76
3' ss Seq
CATCTTATTTTACTTTGTAGCAT
3' ss Score
7.96
Exon sequences
Seq C1 exon
ACACCCCTAACCCAGTGGAAAGCCTTCTGGAGCCTGTGATGGAGCTGCCAGGGTTCGAGTCCTGCGGGAAGACGGAGGTAGCTGAACACGCAGTCAAGCGTATCTACGGGGGCTTTAAGAGCACAGCAGGCAAGCACCCGTGGCAGGTGTCCCTGCAGACCTCACTGCCGTTGACCACCTCCATGCCCCAAGGCCACTTCTGTGGGGGCGCCCTGATCCACCCCTGCTGGGTGCTCACTGCAGCCCACTGTACCGA
Seq A exon
GTAGGTATCCATGGGGAAGGGAGAACAGATGACTGGGGTGCAAACAGCCTCTCTTTCCTCCAAGTGACACCTCAGAAGTTTTGGCAGGACTGGGGTTAAATGCCCAGAGGGGAAAGAACAGAGCCTTAATTGAGAGTGGATATAGCTACCATGGCTTACCACAGCTGTTCCATGAAGTCTACCATATGTAGCTAACTACCAAGAGAGGGCAGGGTTTGTGTGTTTTGTGAATTGTGTTATCCCTGATGCCTTTACTACAGAGGTCTTTCCATGTAGCAAGTATTTAGTATGTACGTTGAAGGAAAGATATATAGTTATGCCTTTTTTTTTAGGAGACTTGGGTTTTAGGAAAGTTTAATGTCTTAACTAAAGTCTCATGGAAAGAAGGCCAGTGAATGAGATTGAATTCAGCTCTGTCTTCTTCCTGAGCCTCTAGAGTCTACCCTGAATGGGCAAAATGGCCCATTATCATCAGTGAACCTCCAGGTCAGGCATTCTCATCTTCACCTCCAGTGTCTTCTGGGAACTGAGAAATCATCACCTCTTCCAGATTCTCTAAGTTCATGGTCAGGGCTGGTCTCATGAGCCCTGGCTTGAGAGGCAGCCTGCATAACTTCTGCTCTACTCTATCCTCTGGGATTCTAGTGTGGTTCCCCAAGAGAAGTTAGACACATGAACATTAGCACCTACTCACGAATGACAGCAGACTTGCTCAAGATTTCAATGGCTGACATGTAGCCAAGCCCAGAGGAAAAAAGAGATCTCCTGGGAAAAGTGAGTGTGTGATTGCACTCTCCATCTACTGATGAAGAAGTCCCATTGCATGGTCTTATCTGGAATCCAAACAGAGTTTTGTAAGGGAGCAAAGAACTGCAGATAAAGATACTGAAGCCGAAGGCCAGGCACTTTACCAAGGTCACATGGCTTCCTAGACTGCATAGCTCCTTCCTCTGTCATCTCAGGGCAATTTCCTGAGCATCTTATTTTACTTTGTAG
Seq C2 exon
CATAAACACCAAGCATCTAAAAGTTGTACTAGGGGATCAGGACCTGAAGAAGACAGAATCCCATGAACAGACCTTCAGGGTGGAAAAAATACTGAAGTACAGTCAGTATAATGAAAGAGATGAGATTCCCCACAATGACATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025075:ENSMUST00000078284:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.013 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(21.5=59.3)
A:
NA
C2:
PF0008921=Trypsin=FE(20.3=100)
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:
TTCGAGTCCTGCGGGAAGAC
R:
TGTCATTGTGGGGAATCTCATCT
Band lengths:
343-1339
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types