HsaEX0016510 @ hg19
Exon Skipping
Gene
ENSG00000172752 | COL29A1
Description
collagen, type VI, alpha 5 [Source:HGNC Symbol;Acc:26674]
Coordinates
chr3:130064359-130095679:+
Coord C1 exon
chr3:130064359-130064824
Coord A exon
chr3:130092454-130092548
Coord C2 exon
chr3:130095080-130095679
Length
95 bp
Sequences
Splice sites
3' ss Seq
TAAATAATTTTCTTTTGCAGAAC
3' ss Score
10.85
5' ss Seq
CAGGTATCA
5' ss Score
7.33
Exon sequences
Seq C1 exon
AAATGGCGATTCCTCTGTCTAAGTAGTAGAAGTGACCGCAGCTCGGCTGCTAGTAAAGATTGCCCTTGGTTTCTGAGAAATTCTGACTCCCTAAGTTCATTTGGCAGCCGGCGGCTTCTCTGAAACAAAGCCAGCAAACAGCTGGAGCGTCTCTGGACACTCACATTAAAACTTGTGAAGAGTTAAAAGCCCCAGGGAAGAGCCAGGCCAAGGGCACGGGTCAGCGCCGGCTTAAAAGACCCTCTCAGGGCACGAGGCGTTCGCTGCGGGAATCCACCTGCAGCTGTGCGGCGCGGACCAGGGCGTGCGGCGCGGACCAGGGCTTCCGGCGCGCGCTCTATCCAACTGCGCCGCGGGCGCCCGAGAGGCGCGCGTTTACTGCGCTCAGGAGCTCGGTGCAGCCTCTTCTGGAGAGTTGGGGGCGGTTTCCAGGGTCCGGAGTGTCCCCTGACCCCGGGAAAGCTGG
Seq A exon
AACAAAAGTAAAAATCTTCACTAACAAAATGAAGATCTTGCTAATTATATTTGTCCTAATCATTTGGACTGAAACATTGGCAGACCAGAGCCCAG
Seq C2 exon
GGCCAGGCCCTGTGTATGCAGATGTCGTGTTTCTGGTGGACAGCTCCGATCACCTGGGACCTAAGTCATTCCCATTCGTGAAAACGTTCATCAACAAAATGATCAACAGTCTCCCCATAGAGGCCAACAAATACCGTGTAGCCCTGGCCCAGTACAGCGACGAGTTTCACAGTGAATTCCATCTGAGCACCTTCAAAGGCAGAAGCCCCATGCTGAACCACCTCAAGAAGAACTTTCAGTTCATTGGCGGGTCCCTGCAGATAGGAAAGGCTCTTCAGGAGGCTCATAGGACCTACTTCTCTGCACCCATAAATGGGAGAGACAGGAAACAGTTTCCCCCAATTTTGGTGGTCCTGGCTTCGGCTGAGTCTGAGGATGAAGTGGAAGAGGCTTCGAAAGCCCTGCAGAAAGACGGGGTGAAAATTATCTCCGTGGGGGTGCAGAAAGCTTCTGAGGAAAATCTGAAGGCCATGGCCACATCCCATTTCCATTTCAACCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000172752_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref, Alt. ATG)
No structure available
Features
Disorder rate (Iupred):
C1=NA A=0.000 C2=0.015
Domain overlap (PFAM):
C1:
NA
A:
NO
C2:
PF0009223=VWA=WD(100=88.1)
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:
TTTCCAGGGTCCGGAGTGTC
R:
GTTGGCCTCTATGGGGAGACT
Band lengths:
169-264
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
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)