MmuEX6028147 @ mm10
Exon Skipping
Gene
ENSMUSG00000066842 | Hmcn1
Description
hemicentin 1 [Source:MGI Symbol;Acc:MGI:2685047]
Coordinates
chr1:150562524-150573595:-
Coord C1 exon
chr1:150573476-150573595
Coord A exon
chr1:150565317-150565443
Coord C2 exon
chr1:150562524-150563893
Length
127 bp
Sequences
Splice sites
3' ss Seq
ATTCCTCGTGTGGTCCCTAGATG
3' ss Score
9.73
5' ss Seq
GGGGTATGT
5' ss Score
7.48
Exon sequences
Seq C1 exon
ATATTGATGAATGTCAAAACAGAGACACTTGCCAACACGAGTGTAAAAACACGATCGGGAGCTACCAGTGCGTCTGCCCACCAGGTTATCGACTCATGCTCAATGGGAAAACGTGCCAAG
Seq A exon
ATGTAGATGAGTGCCTGGAGCAGAATGTCCGCTGTGGACCAAATCGAATGTGTTTCAACATGAGAGGAAGCTACCAGTGCATCGACACACCCTGCCCACCCAACTACCAACGGGATCCTGTTTTGGG
Seq C2 exon
GTTCTGCCTTAAGAACTGTCCACCCAATGACTTGGAATGTACCTTAAGCCCATATGCCTTGGAATATAAACTTGTCTCCCTCCCATTTGGAATAGCCGCCAATCAAGATTTAATCCGGCTGGTTGCATACACACAGGATGGCGTGATGCATCCCAGGACAACTTTCCTCATGATAGATGAGGAACCAGCTGTCCCTTTTGCCTTAAGGGATGAAAACCTGAAAGGAGTTGTGTACACTACACGTCCACTACGAGAGGCAGAGACCTACCGCATGAAGGTGGGAGCTTTATCCTACAGTGCCAATGGGACCATTGAGTATCAGACTACATTCATAGTTTATATAGCTGTGTCTGCCTATCCGTACTAGGAAGCACTCCAGAATCAAGTCCAAATATTTAAGCTGCATTGATCTAGCCATCGAGGACCTCTACAGTTTACTATCTCTTGAACAGTTGCAATCTTGGCAACTTGAAAATGGTGCTGTACTCTGTTACGTATGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000066842_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.001
Domain overlap (PFAM):
C1:
PF0764510=EGF_CA=WD(100=95.1)
A:
PF126622=cEGF=PD(12.5=7.0)
C2:
NO
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGAGACACTTGCCAACACG
R:
CGCCATCCTGTGTGTATGCAA
Band lengths:
245-372
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