MmuEX6074093 @ mm10
Exon Skipping
Gene
ENSMUSG00000058897 | Col25a1
Description
collagen, type XXV, alpha 1 [Source:MGI Symbol;Acc:MGI:1924268]
Coordinates
chr3:130550037-130552961:+
Coord C1 exon
chr3:130550037-130550081
Coord A exon
chr3:130551960-130552004
Coord C2 exon
chr3:130552884-130552961
Length
45 bp
Sequences
Splice sites
3' ss Seq
TTTTTGTTTTGTGGCCAAAGGGT
3' ss Score
5.18
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
Exon sequences
Seq C1 exon
GGGAAGCAAGGTGAATCAGGAGCTAGAGGCCCGAAGGGGTCAAAG
Seq A exon
GGTGATCGTGGAGACAAAGGAGACTCTGGCGCTCTGGGACCACGG
Seq C2 exon
GGTCCACCTGGACAAAAGGGGGATCCAGGAGCCACAGAGATCATAGACTACAATGGCAACCTCCATGAGGCCTTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000058897-'36-53,'36-42,39-53=AN
Average complexity
A_C1
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(23.3=100)
A:
PF0139113=Collagen=FE(23.3=100)
C2:
PF0139113=Collagen=PD(20.0=46.2)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGAAGCAAGGTGAATCAGGA
R:
CCTCATGGAGGTTGCCATTGT
Band lengths:
115-160
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