MmuALTD1029807-2/2 @ mm10
Alternative 5'ss
Gene
ENSMUSG00000049550 | Clip1
Description
CAP-GLY domain containing linker protein 1 [Source:MGI Symbol;Acc:MGI:1928401]
Coordinates
chr5:123642419-123646305:-
Coord C1 exon
chr5:123646113-123646305
Coord A exon
chr5:123646083-123646112
Coord C2 exon
chr5:123642419-123642616
Length
30 bp
Sequences
Splice sites
5' ss Seq
CTAGTAAGC
5' ss Score
5.2
3' ss Seq
TCTCTGACTTTCCTTTGCAGTTG
3' ss Score
11.24
Exon sequences
Seq C1 exon
GTATTTTCAGTGTCAACCCAAATATGGATTGTTCGCTCCTGTCCACAAAGTGACAAAGATTGGCTTCCCGTCTACTACCCCAGCCAAAGCCAAAGCCGCCGCTGTGAGGCGAGTGATGGCCGCCACGCCCGCCAGCCTGAAGCGAAGCCCTTCTGCCTCCTCCCTCAGCTCCATGAGCTCCGTGGCCTCCTCT
Seq A exon
GTGAGCAGCAAACCCAGCCGGACAGGACTA
Seq C2 exon
TTGACTGAAACCTCCTCCCGCTACGCCCGCAAGATCTCGGGCACCACTGCCCTCCAGGAGGCGCTGAAGGAGAAGCAGCAGCACATTGAGCAGCTGCTGGCTGAGCGGGACCTGGAGCGGGCCGAGGTGGCCAAGGCTACCAGCCACGTGGGGGAAATAGAGCAGGAGCTAGCCCTGGCCCGAGATGGGCATGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000049550-26-16,27-16-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.448 A=NA C2=0.484
Domain overlap (PFAM):
C1:
PF0130220=CAP_GLY=PD(27.3=24.0),PF041569=IncA=PU(18.7=38.7)
A:
NA
C2:
PF041569=IncA=FE(41.9=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCTCCCTCAGCTCCATGAG
R:
ATGTGCTGCTGCTTCTCCTTC
Band lengths:
123-153
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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