Special

MmuEX6099907 @ mm9

Exon Skipping

Gene
Description
collagen, type V, alpha 1 [Source:MGI Symbol;Acc:MGI:88457]
Coordinates
chr2:27876288-27880380:+
Coord C1 exon
chr2:27876288-27876323
Coord A exon
chr2:27877801-27877854
Coord C2 exon
chr2:27880125-27880380
Length
54 bp
Sequences
Splice sites
3' ss Seq
CTTTCTTGTTTTCCCTCCAGGGT
3' ss Score
12.28
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
Exon sequences
Seq C1 exon
GGCCCTCCAGGTCCCAAAGGTGCTAAGGGCTCTTCG
Seq A exon
GGTCCCACCGGCCCGAAGGGTGAGGCAGGCCACCCAGGACTCCCCGGCCCACCT
Seq C2 exon
GGCCCTCCGGGTGAGGTCATCCAGCCCCTGCCAATCCAGGCCTCCAGGACTCGGCGGAACATTGATGCCAGCCAGCTCCTGGACGATGGGGCTGGGGAGAGCTACGTGGATTATGCAGATGGCATGGAAGAGATCTTTGGTTCCCTCAACTCCCTGAAGCTGGAGATTGAACAGATGAAGCGACCACTGGGCACCCAGCAGAACCCAGCCCGTACCTGCAAGGATCTACAGCTCTGTCATCCTGACTTCCCAGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026837-'61-62,'61-61,62-62=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact

Alternative protein isoforms (Ref)

No structure available
Features
Disorder rate (Iupred):
  C1=1.000 A=1.000 C2=0.581
Domain overlap (PFAM):

C1:
PF0139113=Collagen=FE(17.5=100)
A:
PF0139113=Collagen=FE(27.0=100)
C2:
PF0139113=Collagen=PD(12.7=9.3),PF0141013=COLFI=PU(12.7=31.4)


Main Inclusion Isoform:


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
HIGH PSI
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAGGTCCCAAAGGTGCTAA
R:
AATCCACGTAGCTCTCCCCAG
Band lengths:
143-197
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]