MmuINT0075755 @ mm9
Intron Retention
Gene
ENSMUSG00000025075 | Habp2
Description
hyaluronic acid binding protein 2 [Source:MGI Symbol;Acc:MGI:1196378]
Coordinates
chr19:56392217-56394579:+
Coord C1 exon
chr19:56392217-56392362
Coord A exon
chr19:56392363-56393960
Coord C2 exon
chr19:56393961-56394579
Length
1598 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGA
5' ss Score
7.41
3' ss Seq
CCCTTCTGCTCTCCCTTTAGGGT
3' ss Score
13.53
Exon sequences
Seq C1 exon
GGGAAGGGTCCCGCCAGCTCCTGGATGCTAAAGTCAAGCTAATCGCTAACCCTTTGTGCAACTCCCGACAACTCTATGACCACACCATCGATGACAGTATGATTTGTGCGGGGAACCTTCAGAAGCCCGGATCAGACACCTGCCAG
Seq A exon
GTCAGAAACTCCACATGGTACTTGGAGGTAGAGGCTCACTGAAGATCCAGCTGAGCGGAGAGGCTTAATGATAGCTCTGGGATGGGAACCGGGGTCATCAGGCCACCTGCCTCAGCATTAAGACACAGGTGGGCTACATCAAGATGGGTCAGCGTAATAACTGTGATCACATGTGGCTGCACAGCCTTGTTTAACTCTCCCAGTGTCCTATGATGTCACTGTCATGCCTTACAAGGGCTTGTAGACATTATCAATGTCAATAGCAACAGAGCACTAAGTGACAGACAGGACTGAGATCAGATCAACCCAGATGTGTGCAACACCAGAGCCTTTGCTACTCTGCTCCACTCTAATAACAGCAAACCCTCAGCTGCTAAGGTCTGTGGAGATTCAAATGTGCTCCCGGAGACGGAGGAAGTGGTGATTCCATCAACTGTAGACTAAGGGGATCTCGGGTCCCTATCCCAAATCCAAGCCCATACCCATTTAACTCAGGGCTCGGGGCACATAGGCTGCATTGTTCCTGGACTCCCAGGATCAGCTCTGGCTAGGCTTTCTGCTCGTCCTTACACACTACCCAGCTGTCCCTGAAGATCCAGCGTAGCCACATTCTGATCTTGTACCATGATAGAGCCTCCCTACAAACAGACCCGACGATAACCAGCCAGCTCACAGCCTCTTTGGGTTTGTTCCTCTCTCCAGAGACCATGTCTCTGTTTTGATCCTCTATACTTCTCCAAGGGTCGTGGATAGCCACATGCTCAGGATGGAGACGAGCAAGTGGGTGTGGTTTTCCCTACGCTCTTGGAGGATAAGCAGGCTCACCAGGATCACAGTATGCTTGGTTTTCTATGAAGCTCAAGGGCTATGCTGAAGGGAAGCCAATAGCCATGGTTTTGAAACCTGATCTGTCTCGTATTATAGGACCTTGATCAATCCTTGAAAAAAAAAAATGTATCAAACTTCAGATAAAGTGCCTGCAAGATCACAAGGTATTGGCTATGATTAGGAAAGTAAAGTTATGTGACAAAAGCTATTAGTTGCGGCGACTAAGCAAGTTGTTTCCTTCTCTGCTTCCCTCCTGCCCATCTCTCTGCCCTGGCCTACACACTTCAGAAAGAATCACTACAGTCCTTCTCAGGAGCACAGTTCCTCTATGGTTCTCCACAGCACTCCACTGAAAAGGCAAGGCCTCAGGCCACACTGCTCAGCAGGCAGTAGGTTAAAGATATAGACTACCTCTGGGTCTCTGCCGTACTCCTTATCTGGGCCCGTCCAAACAAGCCATCACCCACCTTGGTCAGCTACTAAAAGAAGTTGAGGAACCCTGGGAATGGAAAATTCTAGAATTGAGAGTCAGGAACCATTACTTGCCCGCAGCACTGCGGCTGCAGTCCTGGGCTTCAAACTTTTTCCAAACTCAGGAACTGGAGCTGGGATTAGCTTCTCTCCCTTTGGAGCTGTGCATCATGGGAAGCTTGAGCACTGGTTCCTCCGAGAAGCCCAGGGTAGCTAGCAGGTGACTTGGCTCCACCCTCCCCTTGTAGGCGTGTCTGAATCAAGTTCACAAGGCTGAACCCCTTCTGCTCTCCCTTTAG
Seq C2 exon
GGTGACTCGGGGGGCCCTCTAACCTGTGAGAAGGATGGAACTTACTACGTCTACGGGATTGTAAGCTGGGGCCAGGAATGTGGGAAGAAGCCAGGAGTCTACACTCAAGTCACCAAGTTCCTGAATTGGATAAAGACCACCATGCACAGGGAGGCTGGCCTCTGAGGTGCTGTCTGCAGAGCCTTGAAGCCCCTCGTCTTTAGCACCAAACAAGAGGGGCTTCCTGCGTAGCCAGGGATGTCCTGGGTCCATGCTCTAGACAGAGGCATTGTTGCCCAGCCTGGGCCTTTCCAGACTGGCACTATATCATTTCATGAGGCCTTTTCTCTCTGGGAACCAACAAGAAATACATTATCTTTGCCCCCGTTCTGACAAGTGTACCTTCTAGATAACCAGAATTCAGAGACGTTCTCCACCATGGAGACTGCGAATCTGAGATCCCTGCTTGCCCCGCACCAGGAGATGTTTCCTTGACTCTTTATCTTTTGTCCATACCATCAGGGTCCTCCACAGAACCAGCCATTCTCATGCAGCCATCAGAGAGAAGCCCCCAAAACCACAAGCTCTTTGTTTGCTTTCAGAGTTGTTATTTTAATAAAGGCAGATGTGGGCACGGGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025075-Habp2:NM_146101:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.037
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(20.3=100)
A:
NA
C2:
PF0008921=Trypsin=PD(18.1=78.2)
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:
TTGTGCAACTCCCGACAACTC
R:
CTAGAGCATGGACCCAGGACA
Band lengths:
352-1950
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: