MmuINT0051219 @ mm10
Intron Retention
Gene
ENSMUSG00000056752 | Dnah9
Description
dynein, axonemal, heavy chain 9 [Source:MGI Symbol;Acc:MGI:1289279]
Coordinates
chr11:66071942-66072980:-
Coord C1 exon
chr11:66072741-66072980
Coord A exon
chr11:66072103-66072740
Coord C2 exon
chr11:66071942-66072102
Length
638 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGC
5' ss Score
10.08
3' ss Seq
ATCTGTCATTCCTCTCTTAGGTT
3' ss Score
10.66
Exon sequences
Seq C1 exon
GTGGCTCTGACCTGCACTCAGATCTGGTGGACGACAGAGGTGGGCATTGCATTTGCCAGGCTGGAGGAAGGCTATGAGAGTGCCATGAAGGACTACTATAAGAAGCAAGTGGCCCAACTCAAAACCCTTATCACCATGCTAATTGGGCCGCTCTCCAAGGGGGACAGGCAAAAGATCATGACCATATGCACCATCGATGTGCATGCCCGGGATGTGGTAGCCAAGATGATTGCTCAAAAG
Seq A exon
GTAGGCATTGTATCACAAGGTATGTTTCTCTTGTAAGCAGAAGCTCCATCTGGCCAGCTCCAATATATATATAACCCCTGGGTGTGCACATCAGCTGTGTGAGGAGCATGGTAGTTCCTGCCACCTTTCAAACCTTCCAGCACAACAGTATAGGGGTGGTACTTGATTTATGGTGGCTCAGCTTATGGTGTTTTGACTTTATGGAGGTAGAAAAGCAATATGCACTTATTAGTAACTATACTTTTATTAAAGGGTATAATTAATAACATGAGCTATTCAAAACAATCATGTAATGGACATTATGTAAAGTGGATTTATCCAACTAAAGAGTAATGAAAATACTTTCACTGTGTAAGGTAGTTATGATGTTTAATAGGAAAAATAGATCAAATTCATTTTCTACTTAAAACATTTCAATCTGTCATGAGTTTATTATCAGGATGTAACCCCCATATAAGCAGAGAAGCATCAGTAATCAGAACTGCCTATGCTTTTCTATGCTATGGGTCAGAGCATCCTGCACTCTCAAGTATCAGACAAAATCCAAGCTGCCCAAAGGCCTCCATTCCTATGAGCACAGGGCTACCTATCGGTAAAGCACTATAATTCACCCACCTGATCTGTCATTCCTCTCTTAG
Seq C2 exon
GTTGACAATGCCCAGGCTTTCCTCTGGCTGTCACAGCTACGACATCGTTGGGATGATGAGGCCAAGCACTGCTTTGCTAACATCTGTGACGCCCAGTTTCTATATTCCTATGAGTACTTGGGAAATACACCTCGCCTAGTGATCACGCCTCTGACTGATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000056752:ENSMUST00000080665:25
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF127742=AAA_6=PU(40.4=35.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATTTGCCAGGCTGGAGGAAG
R:
TCAGTCAGAGGCGTGATCACT
Band lengths:
349-987
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