MmuINT0075760 @ mm9
Intron Retention
Gene
ENSMUSG00000025075 | Habp2
Description
hyaluronic acid binding protein 2 [Source:MGI Symbol;Acc:MGI:1196378]
Coordinates
chr19:56386161-56387456:+
Coord C1 exon
chr19:56386161-56386332
Coord A exon
chr19:56386333-56387358
Coord C2 exon
chr19:56387359-56387456
Length
1026 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGA
5' ss Score
10.03
3' ss Seq
ACTTAAATTTTGTGTTTTAGAAA
3' ss Score
9.68
Exon sequences
Seq C1 exon
GTCCGGACGACTGTTATGTCGGTGATGGCTACTCTTACCGAGGCAAAGTGAGTAAGACAGTCAACCAGAACCCATGCCTTTACTGGAACTCCCACCTCCTCTTGCAGGAGACTTATAACATGTTTATGGAGGATGCAGAGACCCACGGGATCGCAGAGCACAACTTCTGCAG
Seq A exon
GTACGAACTACTGCCGCCTGTAGGTCCCATCTTGGTTGCTTGACTTTGAAACCGATTGCAAGTCAGCAGCCTTCTTTCTGAACAGGGAAGCATCCTACTCGGGATAACATAACAATAAAAACTCCCCTAGTCTCGGGGCCTCGTGCACATCGAAGTTCATTTCTTACTAACTACACGTGTCGTGTGGGTGGGACGGTGATGGGGGTGGGGTGGGTGCAGCACCAGAGTATTGCAGATACCCAGCAAGGGTAAAAAGAGAACAATGAGGCAAAAAAAAAAAAAAAAAGGCAACCAAAACCCAAGAAATGACACCTTACCTTCCACATGAATTCTGGGATTCTGTGGCAGAAATAGTCACATGGAGCCACTTGCCATCAAGAGAGAGGCTGAGGGACAAATGGATTAGACTTCCCGAGTCATCTGTCTCCAGACAACTTCTGGGTTCCTAGCTCTACCTTTAGTCTGACCAAGGTCGATGACTTGCGAGATTTGTGTACGGAGAGTGAGGGTGTTTCGCTTGTCTTTGCACTGGCCCCACACGCAATGGTGTCTTCTTTGCACACAGCACCCTACCTCTGTTTTCTTAATGCTCACTCGGAGATGCCTTCTTGTGGCGCTATCTTCATAGAGAAACTCTTTGACTAGTTCCCAAAGGATTCTCATGCCTGGGACTTGGAGGTTGGGGCCAGCTTTCACCGTGTCTGTCTGTCTGTCTATAATACTTCCTAAACACATTGAGTGGGGATCTTCAGTAGGAACCCCTCTTCTCCTATGTTTCCTGTCTCCCATGGTCCAGCACACTGGTTGGAAACTACTTTCTGGTCCTCAGGATTCTCCTCCTGACAGTAACATTTTGCCCAACATCTGTGAGCATGCTTGTATGCCAAGGTTTGCTAACCTGTTGGAGGATTCAGTGAAGAATGGTTCCCAGATGTGTGGGGATCAGGAATCCTCTGACTCAGGGTGCTTCCATGATATGAATGCCTCTGAGCCTTGATGGTCAGTCACTTAAATTTTGTGTTTTAG
Seq C2 exon
AAACCCAGATGGAGACCACAAACCCTGGTGTTTCGTCAAGGTGAACAGTGAGAAGGTGAAATGGGAATACTGTGATGTCACAGTCTGTCCAGTGCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025075-Habp2:NM_146101:6
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.001 A=NA C2=0.006
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PU(63.9=91.4)
A:
NA
C2:
PF0005113=Kringle=PD(34.9=85.3)
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:
GTCCGGACGACTGTTATGTC
R:
GCACTGGACAGACTGTGACAT
Band lengths:
267-1293
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: