HsaEX0016476 @ hg38
Exon Skipping
Gene
ENSG00000188517 | COL25A1
Description
collagen type XXV alpha 1 chain [Source:HGNC Symbol;Acc:HGNC:18603]
Coordinates
chr4:108817397-108824227:-
Coord C1 exon
chr4:108824174-108824227
Coord A exon
chr4:108819812-108819898
Coord C2 exon
chr4:108817397-108817435
Length
87 bp
Sequences
Splice sites
3' ss Seq
TTAAACCCTTGTATCCACAGGGG
3' ss Score
9.59
5' ss Seq
TTGGTATGT
5' ss Score
7.12
Exon sequences
Seq C1 exon
GGCTTCCCTGGTCCACGGGGTGAGAAGGGTGATCTAGGAGAAAAGGGAGAAAAG
Seq A exon
GGGGAAAAGGGAAAGAAAGGCAAAAAGGGGCCTAAAGGGGAGAAAGGAGAACAGGGTGCTCCTGGATTAGATGCACCCTGCCCGTTG
Seq C2 exon
GGGCCAGATGGCTTACCCATGCCTGGCTGTTGGCAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000188517_MULTIEX2-9/10=7-C2
Average complexity
ME(9-10[100=92])
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.873 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(15.5=72.2),PF0139113=Collagen=FE(23.0=100)
A:
NA
C2:
PF0139113=Collagen=PD(38.5=71.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTTCCCTGGTCCACGG
R:
CAGGCATGGGTAAGCCATCTG
Band lengths:
79-166
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development