MmuINT0037294 @ mm10
Intron Retention
Gene
ENSMUSG00000007041 | Clic1
Description
chloride intracellular channel 1 [Source:MGI Symbol;Acc:MGI:2148924]
Coordinates
chr17:35052435-35052906:+
Coord C1 exon
chr17:35052435-35052544
Coord A exon
chr17:35052545-35052780
Coord C2 exon
chr17:35052781-35052906
Length
236 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGC
5' ss Score
6.32
3' ss Seq
ACGTGTGACCTCTTCTCCAGACG
3' ss Score
7.52
Exon sequences
Seq C1 exon
GCTGGCAGTGATGGTGCCAAGATTGGGAACTGCCCCTTCTCCCAGAGACTGTTCATGGTGCTCTGGCTCAAGGGAGTCACCTTCAACGTTACCACTGTGGACACCAAGAG
Seq A exon
GTGGGCCCACTTCTGACCCTCTAAACATCCTTTGTGTGGATGCACGTGCACTGCATGCGCATGCGCACTCTCGTGAACCCGTCTTCCTTAAACCGGTTCTCTCTCTCGTCTGGGACAAATCTCTCCATTCTATGTCCCTGTTTCTGACACACACACACACACACACACACACACACACACACTCACACACACACACACATCCCTTTTCCTTTCTTGACGTGTGACCTCTTCTCCAG
Seq C2 exon
ACGGACAGAGACTGTACAGAAGCTCTGCCCCGGTGGGCAGCTGCCGTTCTTGCTCTATGGCACCGAAGTGCACACAGACACCAACAAGATCGAGGAATTCCTGGAGGCCATGCTGTGCCCTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000007041:ENSMUST00000007257:2
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=0.047
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=PU(40.3=78.4)
A:
NA
C2:
PF134171=GST_N_3=FE(58.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGTGATGGTGCCAAGATTG
R:
CTGGGAGGGCACAGCATG
Band lengths:
232-468
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