HsaEX6058455 @ hg19
Exon Skipping
Gene
ENSG00000172752 | COL29A1
Description
collagen, type VI, alpha 5 [Source:HGNC Symbol;Acc:26674]
Coordinates
chr3:130124975-130128232:+
Coord C1 exon
chr3:130124975-130125019
Coord A exon
chr3:130125112-130125165
Coord C2 exon
chr3:130128170-130128232
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTTTTCTTGTCTTCTTTTAGGGC
3' ss Score
13.38
5' ss Seq
CAGGTAACA
5' ss Score
8.88
Exon sequences
Seq C1 exon
GGAGGTCATGGAGACGATGGGATTGATGGACTTGATGGGGAAGAG
Seq A exon
GGCTGTCATGGATTTCCTGGAATAAAAGGAGAAAAAGGTGATCCAGGATCTCAG
Seq C2 exon
GGCAGCCCAGGTTCCAGAGGTGCCCCTGGGCAGTATGGAGAGAAGGGCTTCCCAGGGGATCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000172752-'15-16,'15-15,16-16=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(19.7=100),PF0139113=Collagen=PU(18.3=73.3)
A:
PF0139113=Collagen=FE(23.9=100),PF0139113=Collagen=FE(28.3=100)
C2:
PF0139113=Collagen=PD(3.4=14.3),PF0139113=Collagen=FE(33.3=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCATGGAGACGATGGGATTGA
R:
TCCCCTGGGAAGCCCTTCT
Band lengths:
100-154
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)