MmuEX6074085 @ mm10
Exon Skipping
Gene
ENSMUSG00000058897 | Col25a1
Description
collagen, type XXV, alpha 1 [Source:MGI Symbol;Acc:MGI:1924268]
Coordinates
chr3:130577302-130584726:+
Coord C1 exon
chr3:130577302-130578130
Coord A exon
chr3:130583270-130583323
Coord C2 exon
chr3:130584700-130584726
Length
54 bp
Sequences
Splice sites
3' ss Seq
TCTGCTTTTTTTCATTTTAGGGA
3' ss Score
11.81
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
Exon sequences
Seq C1 exon
ATATTTTCATTGGGCCCTCATCCAGGAAGTTGAAGTCAATGGGCTAAAACTTCCAGAACTACATATTCTAGTTGGTAATCTTAACACAAAGCTACTGTGTTCATTCTGAGTAAATTATAATGTTTTTCCAAAGGAAATTACAAAACCTACGTGGTCTTCTCCACACGGTTACCTATGTTCTCATTTTTCTTTCGAGGGTTAAAGAATGACCTGTTTTCCTCTAGCCATAAGGAAATGATTTGGTGCGTTATAAAGCAAAGCCCTTTCACCAACCTCACTATCCTAGACTAGGTTTCCATATCCCTAGGAGCAAAAAAATAAAAGATAGACATTCGGAGGAAGATGAATATCTGACACACAAAATATGCTGCAGCCCCGCAGCTACTCATGTGTCTGGAACTTCTTCCCCCTCTTGGTTTCTCACCCACTTTTTCTTCTCTTCACCTTGGAAAACTCCAAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTGT
Seq A exon
GGAGAGAAAGGAGCTATGGGAGAGCCTGGACCCAGAGGGCCCTATGGGCTGCCT
Seq C2 exon
GGCAAAGATGGAGAACCTGGTCTTGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000058897-'52-55,'52-54,53-55
Average complexity
C3
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.868 A=0.802 C2=0.771
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(18.7=100)
A:
PF0139113=Collagen=FE(18.7=100),PF0139113=Collagen=PU(18.7=77.8)
C2:
PF0139113=Collagen=FE(8.8=100),PF0139113=Collagen=FE(10.7=100)
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:
CGCAGCTACTCATGTGTCTGG
R:
ACCAGGTTCTCCATCTTTGCC
Band lengths:
145-199
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