MmuINT0075754 @ mm10
Intron Retention
Gene
ENSMUSG00000025075 | Habp2
Description
hyaluronic acid binding protein 2 [Source:MGI Symbol;Acc:MGI:1196378]
Coordinates
chr19:56316283-56317872:+
Coord C1 exon
chr19:56316283-56316417
Coord A exon
chr19:56316418-56317726
Coord C2 exon
chr19:56317727-56317872
Length
1309 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
GACCGTTTTCTATCCCACAGGGG
3' ss Score
10.75
Exon sequences
Seq C1 exon
CTTTGCTCAAGTTAAAGCCAGTGGGTGGTCACTGTGCTCTGGAATCCAGATATGTGAAGACTGTATGTTTGCCCAGCGACCCCTTTCCCTCTGGAACTGAGTGCCACATCTCTGGCTGGGGTGTTACAGAAACAG
Seq A exon
GTGAGTCTGCCATGTGCTCTCCATACTCACAGGAGAGCTACACCATTCAGAGACTAAACCACCAATGGCATCTGCCCTCCTGCTCTTAAAACAAGTTCAAAATGCATCATCAAAGAATGCATCTGCCTCGTTGCCCAGGCCCTAGTTTGATGTAACCATTTGCATGGAGCTTGCTCTGTAGGCCTCTGATCTCCACAGTGGTCTCTGGCCTCCTGTTTTAGACATGTGTCCTTTCTCAAGCACTGACTGTACACCAGGGAAGACAACTATCCTTCTCTAAGGAGATCACAAAGATGCTCGGCACTTGTGGTGCCTGGCAGCGCTCAAGGGCAAAGATAATGCTGTTGTAAGCTTCTGGCATTGGACAGCTCTACAGTGTCAGGCAGTCTTGCAGAAGAGCCTTGGTTGTTTCTCAAGCAGCTCAGTTTTACTTTCTCAGTTGTCACTTTTACCCACATACTCAAAATATGTCACCTCCTTCTAGAAGTATCCTTAATGATGGACAGGGGGAAAAATCACCTTGAATAGGTTTAGATTCATAAAGAAAGGGAAATAGAATGTATGTGATATGTTTGCCAGAGGCTCAGGGGAAAGAAAATCTCTGACTAATTGGAGTCAAGGTCAACCAGGACATTTTTTGTCGATCTTTGGTGTAGTCTGTCCGAGTCCTCTTTCGCTCTCCTTAATGGGGTCTGCTCAATGTGGTGATGTTTTAGTTGGGAAACTTATAGGGCCTCAGATTAGAGTGCCTTTATTTTTCCACAAATAGCTCTTAAGATTATATGTTTAAAGTCAACAATGCTTCGAGCAATTTCATTATCTTTAAGAGAGGGATATTGTCTCCAGGAAGCAGAAAATTTAATGTGTCAGGGTACTTCAGCTATGCACCCACCGATGTAACATATGCAGGAATCCATCTGTCCATCTATCATCATCCATCCATGCATTCACCCATTCATTTCTTCATTAACACCTACTATGTGTTAACCCTTCTGCTAGGTACAGGAAATGTAAACGTGGTTATGAACCACCCCCACTTTCCAGAATTCTCCCTCAGGTTGAAAAGGGAAAGAATGGAGCAAATGATTTGCCCAATTGTGATCAGAACGACTTTGAAAACGCACATGCGTGGAGTGAGAAGGATGCAGGAAAGTTGTCACTGTGTTGGAAGATAGGACGTTTCTCCCCGTGCTCTATAAAAACACCCTTTTCCCTGAACTGAGAGTCGGTGGCTTCTTACTAATGGTGAGTTCCAGTAGGGTGAGTATCATTCCAGTTGTCATGGCAGTGACCGTTTTCTATCCCACAG
Seq C2 exon
GGGAAGGGTCCCGCCAGCTCCTGGATGCTAAAGTCAAGCTAATCGCTAACCCTTTGTGCAACTCCCGACAACTCTATGACCACACCATCGATGACAGTATGATTTGTGCGGGGAACCTTCAGAAGCCCGGATCAGACACCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025075:ENSMUST00000078284:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.020
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PD(30.6=95.7)
A:
NA
C2:
PF0008921=Trypsin=FE(20.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCTCAAGTTAAAGCCAGTGGG
R:
CTGGCAGGTGTCTGATCCGG
Band lengths:
278-1587
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