MmuINT0050846 @ mm9
Intron Retention
Gene
ENSMUSG00000005237 | Dnahc2
Description
dynein, axonemal, heavy chain 2 [Source:MGI Symbol;Acc:MGI:107731]
Coordinates
chr11:69271862-69272459:-
Coord C1 exon
chr11:69272368-69272459
Coord A exon
chr11:69272061-69272367
Coord C2 exon
chr11:69271862-69272060
Length
307 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGA
5' ss Score
5.26
3' ss Seq
TGGTTTCTCTCTTTCTCCAGCGC
3' ss Score
10.41
Exon sequences
Seq C1 exon
GACACAGTGTATGAATACTACGTGAACCCCAAGATGCGGACTTGGACGTCATTTGAGGAGAAGCTCCCCAAGAGCTGGCGTTATCCTCCCAA
Seq A exon
GTGAGAGCAGGGTCCAGGGTGCGAGCAGGGCTTGGTGGCAGATGTGGTGGGGCCAGAAGCCAGGGTGAGCTAAAGAGGAGAAAGCCAATTCCAGGAAGAGATGACCAGGTTTAGGAAGTTGGATCTAGGGGACTCGGGACAGGGTCTTCAAGGAGAATGCCACGCTCCCAAGACCCAGAAGGCTAATGGGTTGGTGACTAGACCTTGGTAACACCAGAGGAAGATAAATACTAAGAGGAAGAAGGAAGTGAGAGCTGAACTGGGGCAGGCCAATGGTCCTTGAGACGTGGTTTCTCTCTTTCTCCAG
Seq C2 exon
CGCCCCTTTCTATAAGATCATGGTACCTACTGTTGATACTGTGCGGTATAACTACTTAGTGAGCACCCTGGTGGCCAACCAGAATCCTGTCTTACTGGTGGGTCCTGTGGGAACTGGAAAGACCTCCATAGCCCAGAGTGTTCTCCAGTCCTTGCCCTCCAGCCAGTGGTCAGTGCTCGTCGTCAACATGTCCGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000005237-Dnahc2:NM_001081330:46
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:
PF127752=AAA_7=PU(1.8=16.1)
A:
NA
C2:
PF127752=AAA_7=FE(24.4=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:
AGTGTATGAATACTACGTGAACCCC
R:
CTGTGCGGACATGTTGACGA
Band lengths:
286-593
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: