MmuEX6074102 @ mm10
Exon Skipping
Gene
ENSMUSG00000058897 | Col25a1
Description
collagen, type XXV, alpha 1 [Source:MGI Symbol;Acc:MGI:1924268]
Coordinates
chr3:130475593-130479020:+
Coord C1 exon
chr3:130475593-130475664
Coord A exon
chr3:130476369-130476476
Coord C2 exon
chr3:130478985-130479020
Length
108 bp
Sequences
Splice sites
3' ss Seq
ATTTCCTTCCTCCATTGCAGGGT
3' ss Score
11.49
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
Exon sequences
Seq C1 exon
ATGGTGTTTCCTAAAATCAATCACGGCTTTCTCTCTGCTGATCAGCAGCTCATTAAACGCCGGCTGATTAAG
Seq A exon
GGTGACCAAGGACAGGCAGGGCCTCCAGGACCTCCAGGCCCTCCTGGTCCAAGAGGCCCACCTGGGGACACAGGAAAGGACGGCCCCCGAGGAATGCCAGGAGTACCT
Seq C2 exon
GGTGAACCAGGAAAACCAGGAGAACAAGGCTTGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000058897-'16-27,'16-25,22-27=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=PD(0.1=0.0),PF0139113=Collagen=PU(1.5=4.2)
A:
PF0139113=Collagen=FE(53.8=100)
C2:
PF0139113=Collagen=FE(19.0=100),PF0139113=Collagen=PU(12.9=66.7)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGTTTCCTAAAATCAATCACGGC
R:
CATCAAGCCTTGTTCTCCTGGT
Band lengths:
106-214
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