MmuINT0037316 @ mm10
Intron Retention
Gene
ENSMUSG00000022949 | Clic6
Description
chloride intracellular channel 6 [Source:MGI Symbol;Acc:MGI:2146607]
Coordinates
chr16:92529869-92530937:+
Coord C1 exon
chr16:92529869-92529975
Coord A exon
chr16:92529976-92530755
Coord C2 exon
chr16:92530756-92530937
Length
780 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
CTCTTGCCTTTGTGTTTTAGTTT
3' ss Score
10.02
Exon sequences
Seq C1 exon
GTACCCTAAGCTGGGAACTCAGCACCCTGAGTCCAACTCAGCGGGAAATGATGTTTTTGCCAAATTCTCAGCATTTATTAAAAACACCAAGAAGGATGCAAATGAGA
Seq A exon
GTAAGTACTCTGTCCTGGGTTCTGCCCCCACAGTTCTGTCCCCATGGGGTCATCCACGTGGCTGCTGGGGAGAGACTGAGCATCTGGGCTCATTTCATAGAGTGTGGGTACAGACGGGATTCTGTGAATAAGGAAAAAATTTCTATCTTCGACTCTGCATGTGACTTTGGAGAGATAGTTTCTAGAGTTTGGGAATCCAAAGTACAACACTATTAAGGGGAGACATTTTGACATGCAGCTGTTGCCACCTGCAATGAGGCGATTGTTTAAACAGTGACTCTGCCAGTCCCTAGCTCTTCATAGGCTTCTCATAAATGTTTATAAGAGTGGATACAGTTGGGCTGGATAGATGGCTCAGTGGTTAAGAGCACATGCTGCTCTTGGGGAGGACTGGAGTTTGGTTCCCAGCCCCTCTACCAAGTGGCTCATAACCACCTATAACTTTAGATCTAGGGCACCTGAGGTCCTTTTCTGGCCCTTGAGGGCACCTGCACACATGTGGTATGCATACACAAAGACACGAATAAAAATAAAAATAAAATAAAAAATACCTTTAAAAATGGATGGGTTTCAGAAGTAGCATAGCCGTGTAGATGGCACAGAGAGACTGAGTCCTGTCTGCCTCTGTGTCCTTCTGGTCTTCTTGCTGCTGACTGTCTGTGTTTCAGAAAGGAAGCACACCCACTCTCTCCTTCCAAGGCAAAAACCAAAACCAAACAAACAAAAAACCCCAGACATTTGTGTGGCCCATCTCCAGCATCTCTTGCCTTTGTGTTTTAG
Seq C2 exon
TTTATGAAAAGAACCTACTACGGGCCCTGAAGAAGCTGGACAGTTACTTAAACAGCCCGCTGCCAGACGAAATCGATGCCGACAGTTCAGAGGATGTCACTGTTTCACAAAGGAAGTTTCTGGATGGGGATGAGCTCACACTGGCTGACTGTAACCTCTTACCCAAGCTCCATATCATTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022949:ENSMUST00000023670:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.216 A=NA C2=0.066
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=PD(0.1=0.0),PF134101=GST_C_2=PU(12.4=32.4)
A:
NA
C2:
PF134101=GST_C_2=FE(61.9=100)
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:
CTGGGAACTCAGCACCCTGA
R:
TTAATGATATGGAGCTTGGGTAAGA
Band lengths:
278-1058
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