MmuINT1008875 @ mm10
Intron Retention
Gene
ENSMUSG00000056752 | Dnah9
Description
dynein, axonemal, heavy chain 9 [Source:MGI Symbol;Acc:MGI:1289279]
Coordinates
chr11:66118713-66119721:-
Coord C1 exon
chr11:66119595-66119721
Coord A exon
chr11:66118969-66119594
Coord C2 exon
chr11:66118713-66118968
Length
626 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGC
5' ss Score
7.16
3' ss Seq
ATGTTTGCCTCTTTACTCAGCTG
3' ss Score
6.76
Exon sequences
Seq C1 exon
GTATGAGAGAAGACTTTATGAGGACTGGTGTCAGACGGTATCTGAAAAGTCACAGTACAATCTTTCCCTACCTCTTTTGCATCGTGACCCCAACACAAAGCAGCTCTCTGTCAACTTTAACCCACAG
Seq A exon
GTCAGCTGGGTGATAGTAACTTCCCCTGGGGTCTCAGAAACAGTCACTTCACTCCACTGACTTCAAGGGTCTAGAGATTTTTAAAAATAATTTCAAACACTACTTGAAAGAACTTATTATACTCCATACTCTCTTGTAGGGGGATGAATCTCAGGTTGGACTACTTTCTTATTGTATTCATGTTCATGATTCCTCTAGGCTTGACCAATGTATTTGATTTTGCACAGTAGGGAATCAAACATGAGTTGCATAATGAGAGGAACACTTCCTCAGAAAGACATTGCTAAACAACTTTGCCATGGTACAACATCATAAGGTGTGTGTATACAAGCGCTAACAACTATGATGTTACTAGATAATTTGAACTTTCGGGGCAGAGGCTACTTTCTCAGTATCCCTTCCTCTTGCTCTTCTGTTTTATACTTCTGGCCATTAGGCTTCCCTCCAAGCTATCTTCTCTCTTCTGAACCATCCACCCTGATGCTGCATGGAAGGAACAAGGAAACAAAGGTTATCAAGAGGCTCAAGGTCTTTAGGCCCCCAAGATTCTAAGGGTCCTTCATGGACACAGCTACTTTCTTGCTGATCTACTTGCAGATGCTACTCATGTTTGCCTCTTTACTCAG
Seq C2 exon
CTGATTTCAGTGTTGAAAGAAATGAACTATCTTCAGCCCAGTGAGGTGAAAACCATCCCCGAGACCGCAGCAGCCATGTTCTCCTCCAGGGAATTCTATCGTCAGCTTGTGGCCAACTTGGAGTTGATGGCAAATTGGTACAACAAGGTTATAAAAATTCTGCTGGAGGTGGAATTTCCACTAGTGGAGGAAGAACTGCAAAATATTGATCTCCGCCTGAGAGCTGCAGAGGAGACTCTGAGCTGGAAAACAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000056752:ENSMUST00000080665:12
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=0.000
Domain overlap (PFAM):
C1:
PF083857=DHC_N1=FE(7.2=100)
A:
NA
C2:
PF083857=DHC_N1=FE(14.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGACTGGTGTCAGACGGTA
R:
AGTCTCCTCTGCAGCTCTCAG
Band lengths:
345-971
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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