MmuINT0037295 @ mm10
Intron Retention
Gene
ENSMUSG00000007041 | Clic1
Description
chloride intracellular channel 1 [Source:MGI Symbol;Acc:MGI:2148924]
Coordinates
chr17:35052781-35053139:+
Coord C1 exon
chr17:35052781-35052906
Coord A exon
chr17:35052907-35053032
Coord C2 exon
chr17:35053033-35053139
Length
126 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAG
5' ss Score
8.68
3' ss Seq
TTTATCCCTCTGCCTTCCAGGTA
3' ss Score
11.37
Exon sequences
Seq C1 exon
ACGGACAGAGACTGTACAGAAGCTCTGCCCCGGTGGGCAGCTGCCGTTCTTGCTCTATGGCACCGAAGTGCACACAGACACCAACAAGATCGAGGAATTCCTGGAGGCCATGCTGTGCCCTCCCAG
Seq A exon
GTACAGGGACACTTGGAAAGAAAAGGGGAGCTGGGAGGCTTTGCAGAACAAAGGTCGAAGAGGGGAGACAGGGAGGCAGGGGGAAGTACCCCAGAAAGGACTTCACTTTATCCCTCTGCCTTCCAG
Seq C2 exon
GTACCCAAAGCTGGCTGCCCTGAACCCTGAGTCCAACACCTCGGGACTGGACATATTTGCAAAGTTTTCTGCCTACATCAAGAACTCAAACCCAGCCCTCAATGACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000007041:ENSMUST00000007257:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.047 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=FE(58.3=100)
A:
NA
C2:
PF134171=GST_N_3=PD(0.1=0.0),PF134101=GST_C_2=PU(5.6=13.5)
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:
CGGACAGAGACTGTACAGAAGC
R:
TGTCATTGAGGGCTGGGTTTG
Band lengths:
232-358
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