MmuINT0037293 @ mm9
Intron Retention
Gene
ENSMUSG00000007041 | Clic1
Description
chloride intracellular channel 1 [Source:MGI Symbol;Acc:MGI:2148924]
Coordinates
chr17:35187188-35189489:+
Coord C1 exon
chr17:35187188-35187431
Coord A exon
chr17:35187432-35189379
Coord C2 exon
chr17:35189380-35189489
Length
1948 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
GAGTGTGTTATTTTTTTCAGGCT
3' ss Score
7.68
Exon sequences
Seq C1 exon
GGTGGAGCAGCTGGGTGTGGGGTGCACTGGGCCTGTGGGGAAGCCGTGTTGGAGCGAACTAAAGGGTCTGATCGGACTTGGGTTGCGCCGAAGGGACAGCCCTGAGTCTGGAGGAGAGAATCCCGGACCGTGAGACCCGCCTTCCCTTGCCCCGGCCCCTCCCAGTTCCCCCAGCGACGGCTGCTTCCTGGTCCCCGACGCAACCATGGCTGAAGAACAACCTCAGGTCGAACTGTTCGTGAAG
Seq A exon
GTAAGAACACTTTCTCTTTCTTTGGCCACTCTCAGGATTTCTGCAAGTCAGTCCTCCCCTCTCCTGGGCTCCAGCTCAAACTCCCCAACCCCTTCCTAGTTGACCCCACTCCCAGCCCCGGTGCTGTTTTGCTGGGGGCAGGGTGGGCGGGCAGACACGACTTGTGAGACGGTAATGGGAGTGCTAGACTCGCCCTGGGAAGTTTATAGAAGAGGTTTCCAGCAGCCTAAAGGGGAGAAAGGTAAAGTTTCAGGAATGAGAGAGTGAATGGGGTTCGGTGCGGGATCCAGGGGGATCCAGACAAGAGAAGGACCGAGAAAGGGACAGTGGTGGGGTTCGAGAAGGTCAGGAGAGTTGGCTACGACGTGTGGCCCTATGAAAGAAAGAGAAAAATGAAAGATGGGGCAGAGAGAACGTGGGGAGAGAGCGAGAAAGAGGGAGGGAGAGAGGGAGAAAAAGAGGAGAGGAGAGGAGAGGAGAGGAGAGGAGAGGAGAGGAGAGGAGAGGAGAGGAGAGGAGAGGAGAGGAGAGGAGAGGAGAGGAGAGGAGAGGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAATGAATAAGAATCTGGTAGGGTTGAAGGATGAGTGTGTCGCATGGTGGAAGGAAAGAGCCTTCACGAAGAAGCAGCACAATCAGTGGCTGAGATGACTATCCCCCAGCTGAGGCAGGAAGGAGATTAAAGTTTAGCAGTAGTTACTTATGAAGAGAGGAGAGGAGAGCTCCAAAGGGGACAGGAGACTCCTTGGGTTAGATGTAAATGCCGGGCTGATACCGGGCTGGAAGAAAAAGCCCCCTCCCCCTGAGCCCTCCCCCTTTACACTATCCTCTCTGTGGGTGTGGTCAAGGCAAGCTGGTGCTAGGCTTTTGGCTTTTGGGTTCGGAAACCGCTGGCTGCCGCGCTCCTCCTCTGCCCAGGCCTGTCCCCTCCGGCACCACCCTTCCCCATACCCCCGTGCACGTCCCTTCCTCTCCGGGCAGGTCCTCTCCCAGTGAGCACATTCGCACTCGTTTTTTGCTTCTCGGCCTCTCTTGGCATTCCTTTCGTTCTTCCCGTCTGTGTGTCGGTGTTCTGTTTTTCTCTATCTTTTTTTTCTGGGTTTTCTCTGGCTGCCTTTCCCAGTTTCTTGGCCCAGGGAAGTGAACTGGAGCCTGGGTCCGCCCCTTAGGTGTGGTCCCCACCTCACACTCGCCTCCAGGGGCTATTTTTACCCTGGGCGAGGAGATGCTGTAGAGATCCTGGCCCTTTGTCCTGTGACGAGGATCTTAGAGGACCAGAGGACATGAGTGAGGGTTTGGGGAACTGTAGGAGTGGCGGCAGCTGCCTAGGCCTCTGTGTGTATAGGTCCCTGCCCCCACTTCCTTGCCAGGAAGGAAGCTGCTGAGGCCTGAAGACACAGAAATGAATCACCCTCAGTCTAGGGGGAGGTGTCCCTTGGGGGATGAGGTCACCTGCATCCAATTAGAGAGTTGCCCCCTTTGTTAGGTCCTCCATATCTCTAAGTTGAGATTAGGTCCTCTGCCTGCCAGGCCCAGCTTCCAGAAACAGCTTAGATAGAGGCTTAGTGAATGGGGACCCTAGTTTCCAAACCCTGCCCTACCTCTCTGCTCCGCTGAAGATCTAGTATTCAATTCCAACCCCACCAAGTCCCCTATTCTTTGCCTTTTGAATCCTGATTCTCAAAGCTAGCCAAGACTTAACTGTTCCTCTGCCTCCTCCCAACTGTCAATCACTGGGATGCCACCAGCCTACCTTTGCTGATCCAGAACCAAAGGAGAAAATAATCCTGCTCTCGGGGTAGCTTAGAGATTGTGGCAGTGTATGTCAGAATTAGCAAGAGGTTCAGAGAGCAGCCTGGTAAGGATGGGGTGCGCCAAGCCTAATGCTGAGTGTGTTATTTTTTTCAG
Seq C2 exon
GCTGGCAGTGATGGTGCCAAGATTGGGAACTGCCCCTTCTCCCAGAGACTGTTCATGGTGCTCTGGCTCAAGGGAGTCACCTTCAACGTTACCACTGTGGACACCAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000007041-Clic1:NM_033444:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134171=GST_N_3=PU(40.3=78.4)
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:
GTGGAGCAGCTGGGTGTG
R:
GGTGTCCACAGTGGTAACGTT
Band lengths:
348-2296
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: