MmuINT0051014 @ mm10
Intron Retention
Gene
ENSMUSG00000052861 | Dnah6
Description
dynein, axonemal, heavy chain 6 [Source:MGI Symbol;Acc:MGI:107744]
Coordinates
chr6:73084651-73086227:-
Coord C1 exon
chr6:73086060-73086227
Coord A exon
chr6:73084887-73086059
Coord C2 exon
chr6:73084651-73084886
Length
1173 bp
Sequences
Splice sites
5' ss Seq
CAGGTATAC
5' ss Score
7.48
3' ss Seq
AACCTTGATTCTGTGGTTAGGTC
3' ss Score
6.18
Exon sequences
Seq C1 exon
GCACGAGATCGTGTAAAGAATGGTCTCACCAAGCTACTAGAAACAAATGTACTAGTAGATAAAATGAAATTAGACCTTTCGGCTTTAGAACCTGTGCTACTACAGAAATCACAAGATGTTGAAGCCCTGATGGAAAAACTAGTGGTGGACCAAGAAAGTGCTGATCAG
Seq A exon
GTATACAGTGGTATGGGAATAGTCATATGGGCCAGAAGGCTTCAACTGGAACCTCATGGATTGCACAGAATAAGTGTATGACCAAATATCTGTCAGGAAGTGACTTAAGAGAGGAAGGGTTTGTTTGCACAAACAGGTGGAGGGGGTATAGTCCATCCTGGCTTCAGTAATGTGAGGCAGTTGATCACAGTGTATTTACAATCAAGAAGCAGAGATCCATGAATACCGGTGTTCTGTGGGCTTTCTCCATTTTATTCAGTCTTAAGACCCCACAGCCCATAGGCAGTTGCAACCCATATTCAGGGTGGGTCTTATCTGCTCAGTTAAATCTTTTTGGAAACAACTTTATAGACACACTCAGAGTTGTGAGTGTGTCAAGTTGACAATCAAGATTAATCCACAGTAAGTGATCATTTTGTTATGTGTGTCATTAAAATAGATACCAGAATCAGTAATGCTATTTTTCTAGAAATTCAGTAATATTTGAAGTCGTAAACAATATCACTTGATCAAATCAGGATGGTTCTCCACCACCGAGTTGATACCACTCAGTAGCCAGAACTGAGAGTCATGAAGAAAGCAATATCTGAAATTATAAAATGGCTCCTCCTCCTAAGAAGAAACTATTGAGTTTATCACAGACATGAGATAGACAAACAGCAAAGAGGATGCAACTCCCACTCACCATGGATCTAACACAAAGGGAAAATGCACTTCATTATCCTGGCTCTTCAGATGCAAGTCAGATGTCTTGTATGTTTGGATTTTGGGATTTTTGTAGATTTTGTAATGTCTGCACACATAGGAGATATACAACACCAGACTCAAGTCTAAGCACAAGTTCATTTATATATGGTATATAAACATCTTATAGTAACTTGGTACAATCGTTTTTTTTTTTTTTTTAGCTGCCTGCACTTGACTGTGGTTGTCACATAAGATCACATGTGAAATTATCTGCTTGTGGCAGTGTTTGGTGAAACATTTAGTTTCAGATTCAGATTTTCCTTACTAAGGATGCTCCTGAGGGTCTATAGCTGCACCACCCTGAATGTGCCCAGTCTTGTCTGATCTTGGAAGCTAAGCAGAGTTGGGCCTGGTTAGTACTTTGATGGGAGACAAGGATGCTCAGCCTTAATGAGACCTCTTAAGCAACCTTGATTCTGTGGTTAG
Seq C2 exon
GTCCGTAATGTTGTGCAAGAAGATGAAGCAATAGCAAAGGTGAAAGCTGAAGAGACTCAAGCGATCGCTGATGATGCCCAGAGAGACCTGGAGGAGGCACTCCCCGCCCTCGAAGCTGCCAATAAAGCACTGGATTCCTTAGACAAAGCAGATATCTCTGAAATCAGAGTCTTCACAAAGCCCCCCGACTTGGTCATGACTGTGATGGAAGCCATCTCCATCCTCTTAAATGCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000052861:ENSMUST00000114040:49
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=0.013
Domain overlap (PFAM):
C1:
PF127772=MT=PU(15.8=94.6)
A:
NA
C2:
PF127772=MT=FE(23.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTCTCACCAAGCTACTAGAAACA
R:
CACAGTCATGACCAAGTCGGG
Band lengths:
351-1524
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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