MmuINT0050990 @ mm9
Intron Retention
Gene
ENSMUSG00000052861 | Dnahc6
Description
dynein, axonemal, heavy chain 6 [Source:MGI Symbol;Acc:MGI:107744]
Coordinates
chr6:73092255-73094165:-
Coord C1 exon
chr6:73094004-73094165
Coord A exon
chr6:73092393-73094003
Coord C2 exon
chr6:73092255-73092392
Length
1611 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCAG
5' ss Score
3.97
3' ss Seq
CAGCTTTGCTTGCGTTTCAGATG
3' ss Score
7.93
Exon sequences
Seq C1 exon
GATCGCTGCTACCTTTGCCTCATGGGGGCTTTGCAGCTTGACCTCGGAGGCGCACCAGCTGGCCCGGCTGGCACAGGGAAAACAGAGACCACCAAAGACCTAGCAAAAGCCCTCGCCATCCAGTGTGTGGTCTTCAACTGCTCTGACGGTTTGGACTACAAG
Seq A exon
GTGCAGTTGTAGTTTTTAGTCTGAATAGTAGCCTTAAATGCTTTCATTTGCAACGTGACTTTAAATGAGGAGAAACTGAGGTGAGGTTGAACGGAGGAGAGAGTGGTATTAAAGAAGGATGAACAAACAGAGCAGGTCAGCATGCTGTGGGCCAGCTCATGTGGGTAAAAACCAACTCAGGAGAGACTTGTCAAAGAGTGCACCTGCTAGGCAGTTAAGAGTATTTGTAAAAAAAAAAAAACCCCAAAACCAAACCAAACCAAACCAAACCAAACCAAACCAAACCAAACCAAAACAGAATATTTGCTGCCCCTTCGGAAATCCTGAGTCGCTTTCCCAGCAGCCACATCAATTGGCTCACAACCATGCATAACTTGAGCTCCAGGGTGTCTGACGCCCTCTTCTGGCCTCCACAGACACTGCATGCCTATGCACACATACATAGAAGCACACACACAAATAATAAACTAATCTCTTAAAATCCATGCATAAGTAAGTGCAATAAAAGGCGAGATGGGCTAGCGTGCATTCAGGGAGGACTCAGGAACAAAATGTAGCTTTACAGGAGAAGATGGGCGGTTGAGAAACTTCTGGCGATTTTTTTTTTCCTCAAAACTTTCTCCCTGCAATATTTTACCGCATGGGAGCAGGTGTGAGTGTAAACACACAAATAAAGACACACAGAGAGAGAGAAGGGGAAGGGAAGGAGAGAGACCTGTACCTATGCTTGCTGGAATAGGAGGAAGAGTAGTAACTAACTGTACAGTTCCTTGATCTTGAGACAGAAAGTGCATCTGCTCCATTCTTAGAAACATGCGTACTGTAAGGGAACATCAACCAAAACTTCCAGTCTTCAAAGACATTATACTCTTTACATGACACAAGTGCACAGTCTTTCTCGCTCACCATTAGGATTCTGCTATAGACTAAATCAACAGGGGCTGGAAGGTGGCTCAGCCCCGCAGTTAGGAGCACTGGAAGCTCTTGCAAGCTTCAGATTCAGTTCCCAGCACGCACATGGTGGCTCACAACTGTAACTTCAGTTCCAGGGGACGCAGCTCCCTCTTCTGGCTTCAGTGGACACTGCATCCCTGTGGTGTACATATATAATGCAGACCAAATATAACATAACATAAAAATAAATCTCTTATAAAAAGAAAAAGAGTGTATGGAGACCCTCTTCTCAGTGTTCTTGGACATGCCTGCCACAGTGGTTCAGAGGCATCAGAAGTTTCCACTAGTGAAATTTTCTAAGGTCTTTTCATTCAAGTTTGTCTCTTCCATGTGTAACTATTTTTTTTTTTTTGAGAACCTGTAAATATTTTCCAGAGCTCAGTGGATGTTATTAATGAAGATTCCTTGCGAACACATGCTCTAGGTTATTTTATTTAAGAAAAAAAATCAGATTTAAACCACTTAGCAGAAAGCAAAGGGATATGACCTCTTGTAGAAATGTGCTCGGTACTGGTGAACAATGTTCACTGTAGCTAGAAGACCATTGGCGGCACCATTCCAGAAACCACCCTTCCATAGTGTCTTAGCCCCAGATTGTAAACATTGGAGGAGACCAGCAAGGCAGCCTGAAGCTGATCAGCTTTGCTTGCGTTTCAG
Seq C2 exon
ATGATGGGGCGCTTCTTCAGTGGCTTGGCACAGTCAGGGGCCTGGTGCTGCTTTGACGAATTCAACCGGATTGACATAGAAGTCCTGTCGGTCATTGCCCAGCAACTCATCACCATTAGGAATGCCAAAGCCGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000052861-Dnahc6:NM_001164669:29
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.056 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF127742=AAA_6=FE(22.9=100)
A:
NA
C2:
PF127742=AAA_6=FE(19.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCTACCTTTGCCTCATGGG
R:
TTTGCGGCTTTGGCATTCCTA
Band lengths:
294-1905
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: