MmuINT0037297 @ mm10
Intron Retention
Gene
ENSMUSG00000007041 | Clic1
Description
chloride intracellular channel 1 [Source:MGI Symbol;Acc:MGI:2148924]
Coordinates
chr17:35055227-35058749:+
Coord C1 exon
chr17:35055227-35055408
Coord A exon
chr17:35055409-35058329
Coord C2 exon
chr17:35058330-35058749
Length
2921 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGGT
5' ss Score
8.08
3' ss Seq
GACCTCTCTCTAACCTTTAGGTG
3' ss Score
10.28
Exon sequences
Seq C1 exon
ACCTAGAGAAGGGACTCCTGAAAGCCCTGAAGGTTCTAGACAATTACCTGACATCCCCCCTCCCAGAAGAAGTGGATGAAACCAGCGCCGAAGATGAGGGCATCTCTCAGAGGAAGTTTCTGGACGGCAATGAGCTCACCCTGGCTGACTGCAACCTGCTGCCAAAGCTTCACATAGTACAG
Seq A exon
GTTGGTGGTCACCGTGGGGGGAAACGGGATCAATCTCTAAAGTGATTTTTTTTTTTTTTTTGAGACAGGGCTTCTCTGTGTAGTCCTAGCTGTCCTGGAACTCACTCTGTAGACCAGGCTGGCCTCGAACTCAGAAATCCGCCTGCCTCTGCCTCCCGAGTGCTGGGATTAAAGGTGTGAGCCACCACGCCCGGCGGTGATTTTTTTTTTAATCACCTTTTATTTATTACAAAGGGCAAAACACAAACGGGGTTTGGAAATCAGGAGAAAACTGGGGGGAGTCAGTTTTCTCCCCTCCACCACGTGGATCCCAAAGATTGAGCCTTGGTCACCTGACTTGGCTGCAGATGTCTTTACTCTGCTGAGCAGTCTTACCAGTCCAGTGTTGCTGTCCATCATGCCTAGGCTTTTACGTGGATGCTGAGCATCCGAACTCAGGCACGCATACTTGCACAGCAAGCATCCACTTTCTCCGAATGGTTTCCATAGATTGCTACCAGTGATGGGCCCCTGCCCAGGGACCACACCCTTAGCAATTGTTGCCCAAGTAAGAGAATTACATCCCATGACACAAGCCATGCTTATACAGCATCCATTAAAGAGTGGCATTCAGTTTTACTGTATGTCTGTGTTTTATCTGTGTACATGTGTGTCTGTATGTGCCTGTGTATCTGTGTGCATATGTTTGCCTGTGTGTATGGGTGTCTGTATCTGTGTGTGCCTGTGTGTATGTGTGTGCCTGGGATGTGGGGGAGGGTGCGCCTGTGTGTATGTGTGTGGCTATGTGTCTGTGTGTATGTGTGTGCCTGCCTGTTTGTATCCAGGGTTGCTTCCAAGAAGGCTTTTCCTGCAACTGTATCACTGCCAAATGTACAAATCAAACAAAGGATTCTCCCAGGTCTATGATGTAACTCTTCACATAGTCCAGGCTTCCCAGGTTCTCTCAAGGACTCTTCCTGAGTTGCTGTTTCCTTTCTGTCCTGGCCTTAAAGTTACAGTGTAATTTAGTAAAACACAGAGCCACTATCACTCCACCATCAACTGAGAGGCACCAGACAGTAAGAAAGCTGGGCAGAGCGTCTCCTCTCCTGCCTGTAATCCTCAGCGTGCTGCAGGCTGAAGTAGTAAGTTCAGTGCGAGTTGGAGGCCAGCCTTAGCTACAGAATAAGAGCCTGGTTCAAACACCACCACTACCACCACTACCCCACACACACAAAGAAAAAGAAAAAAGAGAAAGCAGCCAGGCAGTGGTGGCGCACGCCTTTAATCCCAGCACTCAGGAGGCAGAGGCAGGTGGATTTCTGAGTTTGAGGCCAGCCTGATCTACAAAGTGAGTTACAGGACAGCCAGGGCTACACAGAGAAACCCTGTCTTGGAAAACCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAGAAAAGAAAAGAAAGCAACGAGAAAAGAAGCAAATGATGTTCATTTAGTTCTTGCCCACAAACAGTTGAAATTGAATTGAAGAGAAAGCATTCACATCAAGGGATGTGATGGCTTGCAGAGATGGCTCAGTGGTTAAAAGCACCGGCTGCTCTTCCAGAGGATCTGGGTTCAATTCCCAGCACCCACATGGCAGCTCCCAACTGTCTATAACTCCAGTTCTAGAGAATCTGACATCCTCACTCAGGCATACATGCAGTCAAACACCAATGCACAAAATATAAAACAAACAAACAATTAAAAAAACCCATCCACATCAAGGTACTAAAAGATGACCTGAAAGAAGTCAAGTGAAAAGGAGACAAAGTTCTCTACAAAAATGTTTACTCTTTGCCAACTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTACTGATAATGGAGCCCAGGACTAACCACAACCCTAGCCTGTGTTTGTCTCTGCCTCTGTATATATTCAGTTTTAATCACACGTGAGTGCAGGTGCCTTTGGAGTGCAGAAGGCGGTGGTAGATCCCCTGGAACTGGAGCTGCCCACTGAGGGCGCTGGAAACCAAACATCTACAGCAGGTGTTCACCACTGAGCCATTTCTTAGCCTGTCTCTCTCTTTATCTGTTTCTTGAGACAGGGTCTTTCTATTTAGTTTTAGTGACCATGGAACTTGCTAGTGAGTTCTAGGACTGCCAGGTTTACACAGAGAAACCCCATCTTGTGATGTGTGTGTGGGGGGGGAGGGGGTAGTGAGGATGGGGATGGAAGGGAAAGAATCGGTGAGAAGTCTCTAGAGGGGCTGGCTCAGGGGTTAAGAGCACTGACTGCTCTTCTTGAGGACCATGTTCAGTTGCCAGCACCCACATGGCACCTAACAGCATCTGTAACTCAGACCAGAGGATCTGATGCACAGTCATACAAATAAACAAACGCCCATCCTCATAAAATAAAAATAAGTCTAGCCAGCATGGTGGTGCACGCCTTTAATCCCAGCCCTTAGGAGGTAGAGATGGGTGCATTCCAGAGTTTGAGACCAGCCTGGTCTACAGAGCAAGTTCCAGGACAGCCAGGGCTACACAGAGAAACCCTGTCTTGAAAAGCCTAAATAAATAACATCTAAAAGTACAATTTTTAAAGACTCTAGGCACAGGGTACATGTCTGTAATACCATTCCAGAGATCATCCAGCCTGCGTGACACAGAGAGACCCTATCTCAAAAGAACGGCAGCAAAAAAGCTTGTAAGAATCGAAGTTCATTGGTCTGGCATCCTGGACAGGGCTCGGTTTTTTGTTTGTTTTGTTTTGTTTTTTGTTTTTGTTTTTTACCTGGCAGACCCTAAAGGAAGAGAAAGTTCAACAGCTTCAAAGCAAAGCAAGCATGCCTTCCCTGGGGCTAACACACTGACCTCTCTCTAACCTTTAG
Seq C2 exon
GTGGTGTGCAAAAAGTACAGAGGCTTCACCATCCCAGAGGCATTCCGTGGAGTGCATCGGTACTTGAGCAACGCTTATGCCCGGGAAGAATTTGCCTCCACCTGTCCAGATGATGAAGAGATAGAGCTAGCCTATGAGCAAGTGGCCAGGGCTCTCAAATGAGCACTTTTTAAAGGGTCCTTCACCCACTCTGTGCTCTCCACAGAGGCTTCGGGGGGCTTCCACGTTGCTGCATAATGGACACACTCCGAAATTGCCAGTGGGCAGGAAATCCGGGGCACTTGTGGGGTGGGGCTGTGGGATAAGGCAAAGGATAGTGGACAAGGGTAAGATTTTTATTTTGGGATGGGGTGGGTAGGACAACGCATTTCAGTAATAAAATACAGAATGGAAAAAAATCTAGTGTTGTTTTTACACAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000007041:ENSMUST00000007257:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.197 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134101=GST_C_2=FE(66.7=100)
A:
NA
C2:
PF134101=GST_C_2=PD(25.6=42.6)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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