MmuINT0037300 @ mm10
Intron Retention
Gene
ENSMUSG00000015093 | Clic3
Description
chloride intracellular channel 3 [Source:MGI Symbol;Acc:MGI:1916704]
Coordinates
chr2:25457849-25458221:+
Coord C1 exon
chr2:25457849-25457974
Coord A exon
chr2:25457975-25458114
Coord C2 exon
chr2:25458115-25458221
Length
140 bp
Sequences
Splice sites
5' ss Seq
TGAGTGAGC
5' ss Score
3.38
3' ss Seq
CAAACTATTCACACCTATAGCTT
3' ss Score
4.51
Exon sequences
Seq C1 exon
GGCATTGGATGTGCTGAAGGACTTCGCACCAGGCTCACAGCTGCCCATCCTGCTGTACGATGGGGATGTCAAGACAGACACACTGCAGATCGAGGAGTTTCTGGAGGAGACGTTGGGGCCACCTGA
Seq A exon
GTGAGCATCTGATGGGGTGGGCAGGAGGGCAAAGATGGGACCTCCTTGGGGGACACCTGGGAGAGTGCCTAGGAAGGGTGCTTTGAGGCACAGTGTACTTGAGGGTCTGACTGGAATTCTCAAACTATTCACACCTATAG
Seq C2 exon
CTTCCCTAGCCTGGCACCCAGGTACAGGGAGTCCAACACAGCGGGCAATGACATCTTCCACAAGTTCTCTGCCTTCATCAAGAACCCAGTGCCTACACAGGACAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015093:ENSMUST00000114265:3
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=0.189
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=FE(57.5=100),PF134101=GST_C_2=PU(9.2=27.9)
A:
NA
C2:
PF134171=GST_N_3=PD(0.1=0.0),PF134101=GST_C_2=FE(27.5=100)
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:
GGCATTGGATGTGCTGAAGGA
R:
CTGTGTAGGCACTGGGTTCTT
Band lengths:
226-366
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