HsaEX6058435 @ hg19
Exon Skipping
Gene
ENSG00000172752 | COL29A1
Description
collagen, type VI, alpha 5 [Source:HGNC Symbol;Acc:26674]
Coordinates
chr3:130187639-130190770:+
Coord C1 exon
chr3:130187639-130188325
Coord A exon
chr3:130189715-130189811
Coord C2 exon
chr3:130190526-130190770
Length
97 bp
Sequences
Splice sites
3' ss Seq
CCAGCCCACTCTCTCTCCAGGTG
3' ss Score
11.63
5' ss Seq
ATTGTGAGT
5' ss Score
7.35
Exon sequences
Seq C1 exon
TCCACTGACCTCCACCTTAGGAGACAGGGTTGCTGTCCTGAGCTACTCTCCTCCAGGCTATATGCCTAACACTGAAGAATGCCCTGTCTACCTGGAATTTGATTTGGTTACTTATAACAGTATACACCAAATGAAACATCATCTCCAAGACTCTCAACAGCTCAATGGAGATGTTTTTATTGGCCATGCCTTGCAGTGGACAATTGACAATGTCTTTGTAGGAACCCCCAATCTGAGGAAAAACAAAGTTATCTTTGTAATATCTGCTGGCGAAACCAACTCTTTAGACAAAGACGTCTTAAGGAATGTGTCTCTGAGAGCCAAGTGTCAAGGCTACTCCATATTTGTGTTTTCCTTTGGCCCTAAACACAATGACAAAGAATTAGAAGAATTAGCCAGCCACCCTCTGGATCATCACTTGGTCCAACTTGGCCGAACCCACAAGCCAGATTGGAACTATATCATCAAGTTTGTCAAGCCATTTGTCCATTTAATCAGAC
Seq A exon
GTGCCATCAACAAATATCCCACCGAAGATATGAAAGCCACATGTGTTAACATGACCTCTCCCAACCCAGAGAACGGTGGCACAGAAAACACTGTATT
Seq C2 exon
ACTTCTTCCTGGGATATATGAAATAAAGACAGAAAATGGTGATCTGTTTGATGAATTTGATTCCCAGGCACAACATCTCCTTGTATTAGGGAACAATCATAGTAGTGGTTCTGAGACAGCTACTGATTTGATGCAGAAGTTATATCTGCTCTTTTCAACTGAGAAACTGGCAATGAAAGACAAGGAAAAAGCACATTTAGAAGAAATTTCAGCTCTAGTGGTTGATAAACAGCAAGAAAAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000172752-'37-41,'37-40,38-41=AN
Average complexity
A_C1
Mappability confidence:
88%=100=75%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.095 A=0.510 C2=0.193
Domain overlap (PFAM):
C1:
PF0009223=VWA=WD(100=80.0)
A:
NO
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
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:
ATCACTTGGTCCAACTTGGCC
R:
CAAGGAGATGTTGTGCCTGGG
Band lengths:
170-267
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)