MmuINT0037302 @ mm10
Intron Retention
Gene
ENSMUSG00000015093 | Clic3
Description
chloride intracellular channel 3 [Source:MGI Symbol;Acc:MGI:1916704]
Coordinates
chr2:25458304-25458776:+
Coord C1 exon
chr2:25458304-25458479
Coord A exon
chr2:25458480-25458564
Coord C2 exon
chr2:25458565-25458776
Length
85 bp
Sequences
Splice sites
5' ss Seq
GATGTGAGT
5' ss Score
7.77
3' ss Seq
ACGCTCTGCTGCACCCACAGACC
3' ss Score
7.53
Exon sequences
Seq C1 exon
CCCTGTATCAGCAGCTGCTCCGGGCCCTGACCAGGCTGGACAGCTACCTGCGTGCACCACTGGACCACGAACTGGCACAGGAGCCACATCTTCGTGAGTCCCACCGCCGCTTTCTCGATGGTGACCAGTTCACGTTGGCTGACTGCAGTCTACTACCCAAGCTGCACATTGTGGAT
Seq A exon
GTGAGTGAGGGACCAGCGGGTAGGGTGTGGGTGTGGGTGTGGGGCCATCGAGTGAGACCCTCACCACGCTCTGCTGCACCCACAG
Seq C2 exon
ACCGTGTGTGCACACTTCCGCCAGCTGCCCATCCCCGCGGAACTGTCCTGCGTTCGTCGCTACTTGGACAGTGCGTTGCAGAAGAAGGAGTTCAAGTATACGTGTCCACACAGCGCAGAGATCCTGGCTGCCTACCAGCCTGCTGTGCACCCCCGTTAGCCCCACTACTTCCATACACTCATCTGCAGCCCCATAAAGCATCTCTGCCCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015093:ENSMUST00000114265:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.051 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134101=GST_C_2=FE(44.3=100)
A:
NA
C2:
PF134101=GST_C_2=PD(17.6=43.4)
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:
AGGAGCCACATCTTCGTGAGT
R:
TGCAACGCACTGTCCAAGTAG
Band lengths:
178-263
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