HsaEX6085766 @ hg19
Exon Skipping
Gene
ENSG00000188517 | COL25A1
Description
collagen, type XXV, alpha 1 [Source:HGNC Symbol;Acc:18603]
Coordinates
chr4:109805334-109810889:-
Coord C1 exon
chr4:109810857-109810889
Coord A exon
chr4:109810377-109810412
Coord C2 exon
chr4:109805334-109805378
Length
36 bp
Sequences
Splice sites
3' ss Seq
CTTTGGTTTTCTTTGGCCAGGGA
3' ss Score
6.49
5' ss Seq
AAGGTAATA
5' ss Score
8.49
Exon sequences
Seq C1 exon
GGTGACCCTGGATCATCTGCTGCAGGAATTAAG
Seq A exon
GGAGAACCTGGGGAATCTGGTCGTCCAGGGCAAAAG
Seq C2 exon
GGTGAACCAGGGCTTCCTGGGCTTCCTGGACTTCCGGGGATAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000188517-'23-24,'23-23,24-24=AN
Average complexity
A_C2
Mappability confidence:
100%=100=100%
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(10.4=100),PF0139113=Collagen=PU(6.2=36.4)
A:
PF0139113=Collagen=PD(13.3=80.0),PF0139113=Collagen=FE(21.9=100)
C2:
PF0139113=Collagen=FE(14.6=100),PF0139113=Collagen=FE(21.9=100)
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:
GTGACCCTGGATCATCTGCTG
R:
TATCCCCGGAAGTCCAGGAAG
Band lengths:
74-110
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)