MmuINT0075928 @ mm9
Intron Retention
Gene
ENSMUSG00000030606 | Hapln3
Description
hyaluronan and proteoglycan link protein 3 [Source:MGI Symbol;Acc:MGI:1914916]
Coordinates
chr7:86262735-86266901:-
Coord C1 exon
chr7:86266533-86266901
Coord A exon
chr7:86263038-86266532
Coord C2 exon
chr7:86262735-86263037
Length
3495 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGG
5' ss Score
5.5
3' ss Seq
CTTCCTTTCTTCTTTTATAGGTG
3' ss Score
13.86
Exon sequences
Seq C1 exon
GCCTATTCAATGGCGTGAAGTTAGTGGTGGAGACGACGGAGGAGTCCCTGTTCAGTCACCAAGGAGCCAGCGTGACCCTGCCCTGCCACTACCACTATGAGCCAGCCCTGGCATCCCCAAGACATGTGCGTGTTAAGTGGTGGAAGTTGTCAGAGAATGGAGCCCCAGAACAGGACGTGCTGGTGGTCATCGGGCAGAGGCACCGCTCCTTTGGGGACTACCAAGGGCGAGTTCAACTGAGACAGGACAAGCAGCAGGAAGTCTCGCTGGAGCTTCGAGACCTGCGGCTGGAGGACTCTGGGCGCTACCGCTGCGAGGTCATCGATGGCCTGGAAGATGAGAGTGGCCTGGTAGAGCTGGAGCTTCGGG
Seq A exon
GTGAGGCCCTGAATGGTGCCACTGGGACCCGAGGGAGGGGGAGAGGACCCAGAGAAGGCATAGACCTGTATTCTTTACACAGGTAAGCATGTCGAAGCCTTAAAACAACCCTAAAAAGGAAGTTATTCTGGCGTCACGGCCCTTGTTTTCTAGAGGAGGAAATGAGGCGAGATCAAGGAACATAAAGTCATGTAGCTGATATGTGGCAGAGCTGGGGTTTGAACTCAGGGAGCAACTTCCAGAAGCCGCTGCCTCCTATTCCCTCTCATTTAGTCCTGTTCAGGAAGAGGGAAATGGGAGCTGGTTCCACAGCTCATAGGAGACAGAGCTGAGGTTCCAGCAGGGTTAGTCAGCAAGACATATGAACAAGACAGGGCCAGTGGGTGACATTAGGGACTGGTAGAACCTAGGGCACACCGATGAACCCCATGCCATGTAAAGAAATCCACTTAATTTAGACTAGTTATGATACCAATTAAGAATGCAGGCCTATTGCTGTTAGATTTTCATATTTAAGTAGAAATTTTGTGTGTGGGGTGTGGGGGATAAGAACTCAGGGTCTTGGGCATGCCAGGTAAATGGTCTATCAGTGAGCGATATAACCAGTCATTGGACTCTCTGGATATTTATGTAAAAACCATGCATTTTTAGAAGAAAACTTAGTATTGTTTGAACCAGCCAGACACTACGAGCCAGGTATCTGGTGGCTCCAGTCTGAGACCTCTTTGTAGCTTGGGCTCCTTAGTATCTCAAATGGGGCAGCATCATGCTCCTTTAACTCCATTTTACCCCACCCCAATTTTGGCCCCTAAGCAGGGCTCATCCCTGGAACCGTGGGTATAGCAAACAAGGAAATAACTGGGCAAGTAATAGCAGTTCTTTTATTTCCTACCTTTAGTACTGAGAATGAATTTGCCTCCTGGAAAAGATCACTACCCCTGCCACTTGCAGGGCCTAACCAAAGTCAAACTCTTCGTTCTGAAGTCTGGGTTATCAGAGGGAACGGTCATCAGGGCTGGCCTAGAGAGACAGGGAGCCCTCATCCCTGCAAGGAAGGAGAACTCAGGGTAGAACCGGGCGTACAATCACTAACTGCTGTACCTCCCAACCCCCACCCAGTTGGGGCCCATGAGCTTCAATGATCCCCCAGCCTGGCTGTGCCAGGTGCCTGGCCACAGGTGACATTTATTCAAGGTTCTGCTTCTAGACAGCACGTGCCAAGGAGAGCCTCCTCCTGGACCCTTAGCTCCGTCTGTCTTGATATGGACTGAATGATACTTACACATTTTAAACTGGGCTGGGAATCTCCATCAGTGGTAGAATGAGAGCCAGTATGAATGAAATCCTAGGTTCAACCCAGCTCATGACAACAAGAAGGAATATATAACCTTTTATAAAGTAAGATTTCCAGCATGCATGATGACATGTTTGTTTGTTTGTTTGTTTCTGAGTAACGTTTCTCTGTGTAGCCCTGACTGCCCTAGAACTCACTATGTAGACCAGGTTGGCTTCAAAATCACAGAGATGTGCCTGCCTCTGCCTCCTGAGCCCTGGAATTAAAGGCCTGCGCCACCACACCTTGCTCTGTGCCTTCCTTTTCGGAGACAGGATCTCATTCTGTAGGCCAGAGTGGTCTTGAGTTTATGGTAATTCTTCTGCCTCAGTCTCCTGAGTCCTGGGATTTCAGAAGTGAACCACCATGACCTGCTAGCATAGTAATTTTTGAGGGGAACATGTGTGTGGCCTTCTCAAGAAGGAGGCCCCCTACCCCAAGATGTCCTTGGCCTCAGGCCTCTTACCTAAGGGCTCTTCCCCACCCTTCTTCCTGCAGGTTTTACACGCCCCTGTGTATGACCTTAAACTCATGGTCATCCCCAGTCTCAGCCTCTTGACTGTTAGGATCCTGGGCATGAGCCACCACACCGGGTTCCTTTTATTCTCTTAAGACATTTCCACATTAAGAAACCAGGTTTGGTGTCACAAGTCTCAGTGCTTGGAAGGTTGAAACAGGAGGGCTGCAAGTTTGTGCCCAGCTTGGGTTACATGACAAGACTCTGTCCTTGTCTTAGGTTTCCTATTGCTGCAATGAAACACTTTGGCCAAAAGCAAGTTGGGGAGGAAAGGGTTGATTTCCGCTTACTCTTCCATAGCTCTGTTCATCATCCAAGGAAGTCAGGACAGGAACTCAAACAGGGCAGGAACCTAGAGGCAGGAGCTGATACAGAGGCCGTGGAGGGATGCTGCTTATTGGCTTGCTCTTCATGGCTTGTTCAGTCTGCTTTTTAAAAATAGAACCCGTGGGACATGGTGGCGCATGCCTTTAATCCCAGCACTCGGGAGGCAGAGGCAGGTGGATTTCTGAGTTCGAGGCCAGCCTGGTCTACAAAGTGAGTTCCAGGACAGCCAGGTCTATAAAAAGAAACCAAAAACCAAACCCAAAATAGAACCCAAGATTGTCAGCCTAGGGGTGACCCCACCCACAGTGGGCAGGGCCATCCCCACTTAATCACTAATTAAGAGATGTCTTACAGGCTTGATTATAGTCTGATCTCATTGAGGTTCCCTCTTCTCAGACCATTTTAACTTGTGTCAACTTGACACAAAATTACCCAGTCCAATTCTCCAAAAATCAAATCAACCAACCAACCAACCAACCAACCAATGTGTTCACTAAATGACATACAAAGCTGGCCTTTCCTGTCTGGTCTGAAAATTAAACTGCTTCAGAAGGGCCTAGGAGATGGCTCAGTGGATAATGGCACTTGTGGCTAAGACTGGCAAATTGAGTTCAATCCATAGGACACATATGATGGAAAGGGCAACTAATTGATATGATCTGTTCCTCGATTTTCATGCACATGCCCTTTCCCCAAACAAACAAACGAATGAATGAATAAATAATGAATACAATTAGAGAGATGAACCAACTTATAAATCAAAAGTATGCACCCGTGACCCAAAAGCAGAAAGTTTTAAAAGTCTAAGCCTTGAGCTCACTGCAGTTCCAATGCCACATGGATCCATGAGGATGAAGGGATTTTTAGATTGTCAGGATCTTAAGCAGTTAACAGGTAAATTAATGTATACTAGCGGATGTACAGATGTCGCGTGCAGACACTGCTGTTTTATAAACTTACAAACTCCTGTAGGACTGGAAGAGGAGCCAAGCCTCGTCCCTGGAGCCCAAAGCACAACAGGGTGGTCTTGTCTTCTATCCTGTTGTATAGTCAGGGATGTCACTTGATGGACTGTACAAGTCAATACAAGTCTGGGAACTTTGCTCAGGTTTAGGAGGAAGGTGAGAGGCAGGGGAAGGCTCCTCTTGGGCTTAGGTGGTGGACAGGAACTTGGAGGTTTGCTGAGCTCTCTGAGCCAGCAGAATCTGTGTTTTGGACGCACGTAGATCTTGGTGGAGGTGCAAAGTGCCTGCTTCCTCCTTCCAACTCTGAGACTTTTCTTCCAACCCCTCTAAGACCTTCCTTTCTTCTTTTATAG
Seq C2 exon
GTGTGGTTTTTCCCTACCAGTCCCGCGAAGGGCGCTACCAGCTCAACTTCCACGAGGCCCAACAGGCCTGCCAGGAGCAGGGTGCTATGGTAGCCACTTTTGAGCAGCTTTTCCGAGCCTGGGAGGAAGGCCTAGACTGGTGCAATGCAGGCTGGCTGCAGGATGCCTCCGTGCAGTACCCAATAGTGCTGCCCCGGCAGCCCTGTGGAGGCCTGGGTCTGGCACCTGGTGTTCGCAGCTATGGCCAGCGCCACCACCGCCTGCATCGTTATGATGTGTTCTGCTTTGCTGCTGCCCTCAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030606-Hapln3:NM_178255:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.082 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0768612=V-set=WD(100=92.7),PF0019312=Xlink=PU(0.1=0.0)
A:
NA
C2:
PF0019312=Xlink=WD(100=94.1),PF0019312=Xlink=PU(0.1=0.0)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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: