HsaEX6085771 @ hg19
Exon Skipping
Gene
ENSG00000188517 | COL25A1
Description
collagen, type XXV, alpha 1 [Source:HGNC Symbol;Acc:18603]
Coordinates
chr4:109762851-109766407:-
Coord C1 exon
chr4:109766345-109766407
Coord A exon
chr4:109765675-109765725
Coord C2 exon
chr4:109762851-109762877
Length
51 bp
Sequences
Splice sites
3' ss Seq
TTTATTTTTTGGACATACAGATC
3' ss Score
5.45
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
Exon sequences
Seq C1 exon
GGAGCCAATGGAATGAAAGGAGAAAAAGGAGATTCTGGAATGCCGGGTCCACAGGGTCCTTCT
Seq A exon
ATCATAGGCCCACCAGGCCCACCAGGTCCCCATGGCCCACCTGGCCCCATG
Seq C2 exon
GGACCTCATGGACTTCCTGGACCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000188517-'39-38,'39-37,40-38=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.996 A=1.000 C2=0.936
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(22.2=100),PF0139113=Collagen=PU(18.5=88.2)
A:
PF0139113=Collagen=FE(20.5=100),PF0139113=Collagen=PU(19.7=82.4)
C2:
PF0139113=Collagen=FE(10.3=100),PF0139113=Collagen=FE(11.3=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGCCAATGGAATGAAAGGAGA
R:
TCCAGGAAGTCCATGAGGTCC
Band lengths:
84-135
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)