MmuINT0050842 @ mm9
Intron Retention
Gene
ENSMUSG00000005237 | Dnahc2
Description
dynein, axonemal, heavy chain 2 [Source:MGI Symbol;Acc:MGI:107731]
Coordinates
chr11:69277065-69278558:-
Coord C1 exon
chr11:69278422-69278558
Coord A exon
chr11:69277203-69278421
Coord C2 exon
chr11:69277065-69277202
Length
1219 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCTA
5' ss Score
2.93
3' ss Seq
ACAAGAGTCTGCATCCTTAGGTG
3' ss Score
3.06
Exon sequences
Seq C1 exon
ATGAGAAGCCAGACGAGAAATGGATCCTTTTTGATGGCCCCGTGGACACGCTGTGGATCGAGAGCATGAACTCTGTCATGGACGATAACAAAGTGCTGACCCTTATCAATGGCGAGCGCATTGCGATGCCCGAGCAG
Seq A exon
GTGCTACTGCTACGCAGAGGGGTCCCAGGCCAGCCTCTGGGGAAGGTGGCCGAGGTTGGGGTGGGGGGTGGAAGGGAAGCTGAGGTGGAGGCTGGCACACTGAGAGTGGATTACCCAGAGAGAGCTGGGCCGAGGATCCAGATCCAGGGAAATCTGCAACTGAAGCAAGATGCGAAAGGCTGCAGGTACACTCCCTAGGAGGGGAAGGCTGACCTGGCCTTGGCCTCTAGGTCCCATCTTCGGCATAGGAGGCAAGGGGGCCATTGCTACCCTGGAACAATTGTATAGTAAAGAACTTTGGGACTAGAAATCACTGTGTAGACCCAGGCTGTCGTCAGCTTCATCTCCACTGGCCCGTGATGTGTGGCCTTCGTAGCACGCACCAAGGTTAATATCTCCTGGGGTGTCACGCCCACCTCTCTTTATTCTAACCTTTCTTTCCCTCTCTCCTTCCTCTCCCCCGCCCCCCTTTTGTTCATTTTAGGTAGTATCTCATGTAGCCCAGGCTGGCCTAGGTAATAAAGGATAACCTTGATTCCTGATCTTCCTGCTCCTGCCTCTAGTGCTCAGACACCAGGATTATATAGGCATATGTCACCCACTCTTTTCTTTCACGCAAGCCAGAGAGTACTTTTTTTCCTAAAGATAAATTTGAATGAGCTCTAATTTCTTTTAGAAAGTGTCTTAGTCACTGTGCTATTGCTGTGAAGAGATACCGTGACTCAGGCAGCTATTATAAGGAGAAAGCATTTAAGTGGGGGCTGGCTTACAGTTTCAGAGATTTAGTCTGAAATCATCGAGGACGATGAGCATGGTGATCGGCAGGCAGGCACTGGAGCCAGAGCCGGGAGTGCTCCATCTTGATCCAAAGGCAGAGAGACAGGGCCTGGTGTGAGCTCTTGAAACCTTAAAGCCCACTTCCGGTGACACACTCCCTCCAACGAAGCCATACCCACTTCAGTGAAGCCACACCTCCTAATCCTTCTCAAGTAGTGCTGCTCCCTGCTGCTGGCTAAGCCTTCATGTATATGAGCCTGGTGGTGGTGGTGGGGCTGTTCTCATTCAAACCACCACAGAAAGCATTATAAATCTCAGTCATTATTCTTTTTGTTCCAATTTACTTGGTACAAGTCCCGCGTAAGGCATGGGTTTTGGGTTGTTTTGATCACTGTGAATGAGGTGCCGCTGCTGACGTTCTGACAAGAGTCTGCATCCTTAG
Seq C2 exon
GTGTCTCTCTTGTTTGAAGTGGAGAACTTGGCTGTGGCCTCTCCAGCCACTGTGTCCCGCTGTGGGATGGTCTACACTGACTATGTGGACCTGGGCTGGAAGCCTTATGTTCAGTCATGGCTGGAAAAGAGGCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000005237-Dnahc2:NM_001081330:42
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:
PF077289=AAA_5=FE(31.2=100)
A:
NA
C2:
PF077289=AAA_5=PD(13.9=43.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGCCAGACGAGAAATGGATCC
R:
CTTTGGCCTCTTTTCCAGCCA
Band lengths:
270-1489
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: