MmuINT0050540 @ mm9
Intron Retention
Gene
ENSMUSG00000019027 | Dnahc1
Description
dynein, axonemal, heavy chain 1 [Source:MGI Symbol;Acc:MGI:107721]
Coordinates
chr14:32085510-32086207:-
Coord C1 exon
chr14:32086016-32086207
Coord A exon
chr14:32085621-32086015
Coord C2 exon
chr14:32085510-32085620
Length
395 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
3' ss Seq
TTCTCTGCTCTCAAACTCAGCTG
3' ss Score
6.65
Exon sequences
Seq C1 exon
ATTCAGGTTTGCGTATTTATCCACCAGTCAGTGGCCAGCAAATGTGTTGAGTACCTCGCAGAGCTGGCCCGCCACAACTATGTGACCCCCAAGAGCTATTTGGAGCTGCTCAATATTTTCTCCATCCTCATTGGGCAGAAGAAAATGGAACTGAAGACAGCCAAAAACCGCATGAAGAGTGGCCTTGACAAG
Seq A exon
GTAGGGCTGAGGAAGGCCCGAGGACAGTGGCTAGCTACCTGGGCTGCGTCTCAGCAGTCTTTGATGTCAGGGTGGCCTGGCATTTCAAACTGTACAGCCCAAAGTGCTGAAAAGGGTGACTTCCTTCTCAGTGAAAAAATAAAAATTATCAGTGAAGGGTGAGAGCAAGCAGAGACACCCCCAAGTTCTGAGGGAGTGAGGTGGCCTCCTCTAGAAACCACTGAGCAACCTGGGGGCCACACGGGGACTATTCAGCAGGGCCCTATCCTCAGAACCCTAAGGCCTGGGGTCTCTCTAGTCCCTGTAACACCTGGTTTTTGTTTTGTTTTGTTTTGTTCTGTTTTGTTTTGTTTTGTTTCGTGTTTTGTTTTGTTTTTCTCTGCTCTCAAACTCAG
Seq C2 exon
CTGTTGCGCACTTCTGAGGATGTGGCCAAGATGCAGGAGGAGCTGGAGATTATGCGCCCCCTGCTGGAAGAAGCTGCCAAGGACACCATGCTCACCATGGAACAGATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000019027-Dnahc1:NM_001033668:53
Average complexity
IR-S
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:
PF127802=AAA_8=PD(15.9=67.2),PF127772=MT=PU(2.3=12.5)
A:
NA
C2:
PF127772=MT=FE(10.3=100)
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:
TTCAGGTTTGCGTATTTATCCACCA
R:
CTTGATCTGTTCCATGGTGAGCA
Band lengths:
302-697
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: