MmuINT0037307 @ mm9
Intron Retention
Gene
ENSMUSG00000037242 | Clic4
Description
chloride intracellular channel 4 (mitochondrial) [Source:MGI Symbol;Acc:MGI:1352754]
Coordinates
chr4:134769885-134774604:-
Coord C1 exon
chr4:134774423-134774604
Coord A exon
chr4:134773181-134774422
Coord C2 exon
chr4:134769885-134773180
Length
1242 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGC
5' ss Score
10.08
3' ss Seq
GGATCTATATTGCATTTCAGGTG
3' ss Score
7.11
Exon sequences
Seq C1 exon
CGCTGGAGAGGGGGCTCTTGAAAACGCTGCAGAAACTGGATGAGTACCTCAACTCTCCCCTCCCCGACGAAATCGACGAGAACAGCATGGAGGACATCAAATTTTCCACACGTCGGTTTCTGGACGGCGATGAGATGACATTAGCAGACTGTAACCTGCTGCCCAAGCTCCACATTGTCAAG
Seq A exon
GTAGGCCCACCGGGAGCACGGTGCCGCCGGGAGCGGTGCTCCCTCACCAGAGCCGTTCTCTACCCCAGCCAGAGTCAGCTCAGTAAGTGGATCCTAGAGCTAACTAAGTAGAAAATCATGTTTATAAGTCAGCTGTATTGGGTACCTTAATCGTAGCGCTCAGGAGTCGGGTAGAGGCAGGAAGACCAAGATTTCCCTCTCAAGGAATCTCAAGCCAGACTGAGCTACATGAAACCCTGACCCAGGGAGAAAAAAATATGAGACCTGAGCAAGAAATTTTTTTCTTCTCCTGTGGCTGAATTAATAGGGATATAATAGATAAATATAATAATAATATATTATATTATATATTACATTTTATATTATATCATATTATATACTATATTATATATAATATAATAATAATAATTATAATAGTAGACAATAGATAATTGTGAACTGGGCTGACACTGTCTAATTCTGTGTGGTGACCTTTCAAGGCCACAATGTTAATTCTGTGACAAACCAAGCTTAATGCAATACTAATGGGCATTTGTTGCATGTAAAGATCTGAGACAAGAAAAGATGGTTTTAGAAGCTGGTGTGTTGGGGTGGAGAGATGGCTCAGTGGTTAAGAGCACTGACTGCTCTTCCAGAGGTCTTGAGTTCAATTCCCAGCAACCACATGGTGGCTCACAACCATCTGTATTGGGATCTGATGCCCTCTTCTGGTGTGTCTGAAGACAGATACAGTGTACTCATACATAAAATAAATCTTTTTAAAAAAGAAGAAGCTGGCATGCATTTGGGAGGTGGAGGCAGATGAAGTTCTATTGAAAAGCAGCCCAAACTAAAAAAGGAAGAAAACAAACTTAAAATAGTCTGTTTTTAGACAAATACTTACCCAGTGATTAGACTCAGCCATCTCCCTGTGCCCAAAGCTGGCTTCCAGAGCCGCTGTTGTTTCCCAGTACCTGGAGTAGTGTGCCGTCCTAGTCTACACTCAATGTAGCTCGCTCTCTGTGTGAGTGTGTTCACCTTGGTAACCTGGGAGCCCAGAAATGGGTGCCTTTACGCCCTCGGGGTTACAGGCAGTTGTGAGCTGCCCAACATGGGTGCTGGGAACCAAACGCCAGTCCTGGAAGAGCTGGCCCATAGAATATGTTAATAAAGGTTTCCAGAATTAATAGTCTCTCCAGTCAGACATGCCTCATGTGGGGACCTGGAAGATAGGTGTAACTCTGGATCTATATTGCATTTCAG
Seq C2 exon
GTGGTGGCCAAAAAATACCGCAACTTTGATATTCCTAAAGGAATGACAGGCATCTGGAGGTACCTGACAAACGCCTACAGCAGGGACGAGTTCACCAACACCTGTCCCAGCGACAAGGAGGTGGAAATCGCGTACAGCGATGTCGCCAAGAGACTTACCAAGTAGACAGCACTTTCGAGAGAGATGCCTTCCGATCCCCCGAGAATCCGCTTTCCTAACAGACTGCTCCGCCTCCTAAAGTAGAAGTGTATTTTGCATGAACACACAGTTACTCAAGACTAGGAGTAAGGCTAGACAGAGTAGGCCTCTCCAGTACACACTCCTGAGCAGTATTATTCTAAACTCCTCTACCCAGCCCACCTACCCTACCCTGCCCTGCCCATCTGCTGCCCTCCAGTTTGGAGGCACTTCGCCACAAGCGTGTCACCCAAGAGGCAGTTTGCTGTCACTCTGGAGCCCCGACCATCACGTCCCTTCACTGTGTAGATGGCAGAACTTGAGGTGCTATGTTCCACCATTAGAAAAGTCGCCTGCGACATCAGTGGACCCCATGTTGCTGTGTGCATGGTATAGGAACATTTATGTACTGGGGGAGTTGTAATATTGTGTAAGGAGTCTGGAAGGATTACTACTGTGTCAGACGTGCTGTTTCAGAGTAGTCTGTTCTGGAGTGTCTGAGTGAGAAGGCCACTTCTGTAGAGACACTGGTTTCTAGGTAGACATTTAATTTTGACTAAAATGTGTCATTTGTATAAATTGTAACATCCGATAGATACTACATAGAAAATGAAGGACTGAGGGGTTAGGAAGGCATTTTCAAAATGACAAGAGAAGGTTGGGTGGGGTCTCTGTCTATCTTGCCTGCTGTGAGGGTATCACCCAGGCCCACTTATCCATCTACAGCGAGTAGTATGGCGGCCTTCCTTGTAACAGGCTTTTTCTTTTCTCTCTTCGTGGTGCTTGGGATGGAACCCAGGGCTTTGTTTAGGCCTGACAAGGCTCTGCCCCTGAGCTGTGCCAAGCCCACCTCCCTCTGTGTACAAAGCTCCTTTCTTGGGTGACCAACATCTTCCTGTCTTTGAGCAACCAAGGCCAGCATGCGAGCCACCCAGAAGTTAATTAAACCAGGTTCATCGGGAGTTTGCTGAAATGTTAAGCATACTCTGTTCTAGAGAGGGAGTGAAGAAGGGGCCATCTTAAACTCCCGTGAGGCCCAGGCCTCGTGCTCCTGCCCCACCTCCATGTGCATCAGACTGGGTGAGAGGTCCTTCACTTGTCTTGGGATAAATTGTAGTTGTCTTAGTGAGTGTGTATTTCCACAGTTTTGCCTCATGTCAGTCCCCACGCGGAAGGATAGCCTTCTGTGTTCTTCTTGCCTTTGTTTTGAGACAGGATGTTACTCTGAAACCCTGGTTGGCCTGGAACCTGATAGGTGACCAAGCCAGCCTCAAACTCGTGGCAGCCCTCTTGCATTTGCCTCCTGAATTGGAGCTAGGATTCAGCCTGCACCACCACGGCTGGCTTGTTTTCTCATCTCTAAAAACAAAGTCTAAGCTAAAAGTTGTTTGCAGTCTAACAAAGGGGAATGAGCTTTGTAAAACCAGAGGCCCCTCCCGCCCAGACAAAATGGCCTTTCTCAGTAGTACTCCAGAGCCTGCTGTGACTTTGTGTACTGTGCTACATTTTTTTTTAGTGATCTTTTTAAAAACATGTTCAAGAAATGCTCTTTCTTAAAGTCGTCTCACTCCACAGTTCGCTGCTTTAAAGTGGCCATGCTTTCCCCTACGCTGTGCTGACACTTAAAATAAATGCCAGCTTTATGGAACCATTCTGACTCATGGCAGCTCCCTTTGAAAACTTACCAATACTTCACCTAGCACGGGGGTCAGGGAGAGCTTGACAGTGGTCCCCGTGGCTCAGGGAGATGCCGTGGCCACAGCTTTCACCCCATTGCTAATCAGGGTGTGAGCACCCTTTATATGCAAACTGGGTGGTGGTCTGTCTGGTTCCAGTGGGAGGTACCATCTCTTCTCCTTTGAGAAATGCCCCTGCAGTGTCTCCGTGGGTGGGGTGGGGTTGAGCTTTGACGATTCCAGAGAAGAGGTCTCTGTTCTTCTGTGAGGGGCCAAGCGAGGGCTCCTGGGTCAGAGCTGTACTCACAGCAGAGGGTGTGCAGACAGGCCTTAGTGGGTGTGAGGTGCCCACGATTGGGTGTTTATTCTCTTTGGCTTCCTAAATTGCCTCTTGGTTGCTCTTGCCGTCTCTGGATATCCAAGGAAAGTCTGTCTAGGTTTTGGCAAGGGTAGAATTGTTTTCCTTTATAGAGAGACACAGTTTTGTCAAGGAAGTGAAAACGGATTCGAGATTGGCAGATGGACAGAAGCTTTAAAAAGGAAGAGCCCACAGCAAGCACTCTGACCCTGAGCCGAGATCATGGCTTACAGTCTTGAAATGTGAACTGTGATGTCTCCATGCGGCTGATGCAGGCCATGGGCCGACATCTACAGAGTGGCTCCTCCCTCGCTCTTGCTTAGCCTCCGATCTGTATAAGCCCTCCACCTTGGAGCCGGGATTTTGAGTGGAGTCTGCCTATTTTCCAGTGGATACTAAGAAACTATTAAACAGTGGGAAGCCTGGCTGTTTTAAGTACCGTCGCTTCCTTTTTGATATAGATACAGACTTTGAATACAATGCAGTTTCCTCAGTAACATTAGCTTTCGTAGCAGTTTATACCATAAGATGTTCTGACTGGTTTGTACACTAGGTGGGTCAGCTAGTAGAATTTAGGCATTTATACTTTTCCTGAGTTATACTCCCAGAACCTCCTCAGAGTTGCATGTAGATAGCATTTATTTCTGCATATTTAAAAAAAAAAAAACCCATTTAGGAAATATCTACAAAGAAGAAATGAAAAATAGTAATTATTTTTTCATGAAGATTTTGGTCCACACCTCATTGAGTTGTAATGGATTCTCCAGTTTCTTGAGTTGGCAATAATCAACATTTGGTTTGGAGAGCGAGCATGAGAGAGCGTTTGTTAGTGAAACTCACAGACTTCTAAAAGTTCATTGCTACAGTTATCAAAGTGGGGGAAACTAAAATTACCTTATCAAGGAAAAAATATTAAGTCACAAGCCATATACATTTAGCTCCCAAGCCATAATGCCGAACAGCTTTGGAGTATCGTACAGAAAGCTCATTACAAAATGCTTGCGTTTTCTTTTCTCTGGAACATCAACACCAGTGTATTGCTGGCAGCTATTGTATTAAAAAAATAAATATATTTTCACTATCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037242-Clic4:NM_013885:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.082 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134101=GST_C_2=FE(65.2=100)
A:
NA
C2:
PF134101=GST_C_2=PD(25.0=41.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCTGCAGAAACTGGATGAGT
R:
GGGATCGGAAGGCATCTCTCT
Band lengths:
356-1598
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: