MmuINT0037314 @ mm9
Intron Retention
Gene
ENSMUSG00000022949 | Clic6
Description
chloride intracellular channel 6 [Source:MGI Symbol;Acc:MGI:2146607]
Coordinates
chr16:92528305-92529066:+
Coord C1 exon
chr16:92528305-92528414
Coord A exon
chr16:92528415-92528940
Coord C2 exon
chr16:92528941-92529066
Length
526 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGA
5' ss Score
8.94
3' ss Seq
CGTTCCTCCCTCCTATCTAGGAA
3' ss Score
11.06
Exon sequences
Seq C1 exon
GCTGGTTATGACGGCGAGAGCATCGGAAACTGCCCATTTTCACAGCGTCTCTTTATGATCCTCTGGCTAAAGGGTGTTATATTCAATGTGACAACGGTGGACCTAAAACG
Seq A exon
GTGAGATGGGGCTTCTGTGTCGTTGCAGAAATTGGGCCTAATTCCCCGTATACAGCAACACACCCTTTCATGTATACAAGCATGCGTGTACACACACAAACATGCTCACATACACTGCTAGGGACCATGGGCATATAATGATATGCCCATCCTTAGTCAGGAGCCTGGAATGAAGCCCAAGTGCTAGCCCAGCGGTATGGTTCATAGAGAACTCAGGGGTTGCAGTCAGAAAGGGGTAGGGGTTGGGGTCCAGGGAGAGTCTGCTTTCCCTCCCAGAACCCTGCCTGAGCACTGCTCCGGGCTGATAACCCTGGAGAGTTAACTTTCCCATTGCTGTAGGCAGCCACCGATCATTTGTTAGCACATTCCTTGGCTTTAGTCTCCAACAAGCCACCTTATTAATTCACAAACCACTTGACCATTTTCGAGGGTTATAGCTCTTACACGAAGAGATCACAACCGAGCCTTGGCTGTGACTCCAAGTGCTAGAGACCGTCCATGCAGACCGTTCCTCCCTCCTATCTAG
Seq C2 exon
GAAGCCTGCAGACCTTCAGAACCTGGCTCCTGGGACGAACCCTCCTTTCATGACTTTTGATGGTGAAGTCAAGACAGATGTGAATAAAATTGAGGAGTTCTTAGAGGAGAAGTTAGTTCCCCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022949-Clic6:NM_172469:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.014 A=NA C2=0.434
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=PU(41.1=81.1)
A:
NA
C2:
PF134171=GST_N_3=PD(53.7=94.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGGTTATGACGGCGAGAG
R:
CTCGGGGGAACTAACTTCTC
Band lengths:
236-762
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: