MmuEX0012279 @ mm9
Exon Skipping
Gene
ENSMUSG00000031502 | Col4a1
Description
collagen, type IV, alpha 1 [Source:MGI Symbol;Acc:MGI:88454]
Coordinates
chr8:11202894-11206403:-
Coord C1 exon
chr8:11206226-11206403
Coord A exon
chr8:11204536-11204552
Coord C2 exon
chr8:11202894-11203008
Length
17 bp
Sequences
Splice sites
3' ss Seq
TCTGTGGTTTTTCTTTTTAGCTT
3' ss Score
10.07
5' ss Seq
CAGGTAGAA
5' ss Score
6.68
Exon sequences
Seq C1 exon
GTACGGCTGGCAGCTGCCTGCGTAAGTTCAGCACCATGCCCTTTCTCTTCTGCAACATCAACAACGTCTGCAACTTCGCCTCCAGGAACGACTACTCTTACTGGCTGTCCACGCCAGAGCCCATGCCCATGTCCATGGCACCCATCTCTGGGGACAACATCCGGCCCTTCATTAGCAG
Seq A exon
CTTTCCTTGGAAAACAG
Seq C2 exon
GTGTGCGGTTTGTGAAGCACCGGCCATGGTGATGGCGGTACACAGTCAGACCATTCAGATTCCGCAGTGCCCTAACGGTTGGTCCTCACTGTGGATCGGCTATTCCTTCGTGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031502_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
In the CDS, with uncertain impact
Show structural model
Features
Disorder rate (Iupred):
C1=0.033 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0141314=C4=FE(53.6=100)
A:
PF0141314=C4=PD(1.0=14.3)
C2:
PF0141314=C4=PD(6.4=17.9),PF0141314=C4=PU(26.3=76.9)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATGTCCATGGCACCCATCTC
R:
GTCTGACTGTGTACCGCCATC
Band lengths:
102-119
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types