MmuEX6028102 @ mm10
Exon Skipping
Gene
ENSMUSG00000066842 | Hmcn1
Description
hemicentin 1 [Source:MGI Symbol;Acc:MGI:2685047]
Coordinates
chr1:150657071-150658640:-
Coord C1 exon
chr1:150658479-150658640
Coord A exon
chr1:150657378-150657491
Coord C2 exon
chr1:150657071-150657273
Length
114 bp
Sequences
Splice sites
3' ss Seq
TTATATTATATTGTCCCCAGGTG
3' ss Score
9.94
5' ss Seq
ATGGTGTGT
5' ss Score
4.84
Exon sequences
Seq C1 exon
TTCCTCCAAGTGTCATTGGTCCTAACCATGAACATCTCTCTGTGGTTGTGAACCATTTCATCTCTTTGAACTGTGAAGTTTCTGGTTTTCCCCCTCCTGACCTCAGCTGGCTCAAGAATGAAGAGCCAATCAAGCCAAACACGAATGTTCTCACCGTGCCTG
Seq A exon
GTGGTAGAACTCTACAGATTATCCGGGCCAAGATATCAGATGGAGGCGACTATACCTGCATTGCTATCAACCAAGCTGGAGAAAGCAAGAAAAAAGTTTCACTGACTGTTCATG
Seq C2 exon
TGCCCCCAAGCATCAAGGATCACGGCAGCCAATCTCTTTCTATAGTGAATGTAAGAGAGGGGACCTCAGTGTCTTTGGAATGTGAGTCAAATGCTGTGCCTCCTCCAGTCATCACCTGGTCTAAGAATGGGCGGATGATACCAGATTCTACCAACGTGGAGATTTTAACTGGTGGACAAACACTACACATCAGACGAGCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000066842-'64-65,'64-64,65-65=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.218 A=0.154 C2=0.265
Domain overlap (PFAM):
C1:
PF0767911=I-set=PU(58.0=92.7)
A:
PF0767911=I-set=PD(40.9=92.3)
C2:
PF0767911=I-set=PU(69.0=88.2)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGCCAATCAAGCCAAACACG
R:
TCGGCTCGTCTGATGTGTAGT
Band lengths:
242-356
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