HsaEX0016505 @ hg19
Exon Skipping
Gene
ENSG00000196739 | COL27A1
Description
collagen, type XXVII, alpha 1 [Source:HGNC Symbol;Acc:22986]
Coordinates
chr9:117064362-117068968:+
Coord C1 exon
chr9:117064362-117064388
Coord A exon
chr9:117066888-117066953
Coord C2 exon
chr9:117068800-117068968
Length
66 bp
Sequences
Splice sites
3' ss Seq
CCTGTCTTTTCCTTGCCCAGCAA
3' ss Score
7.57
5' ss Seq
GAGGTATCT
5' ss Score
7.27
Exon sequences
Seq C1 exon
GGTCCTCCAGGGGGTCCTATCCAATTG
Seq A exon
CAACAAGATGATCTTGGGGCAGCTTTCCAGACGTGGATGGACACCAGTGGAGCACTCAGGCCAGAG
Seq C2 exon
AGTTACAGCTATCCAGACCGGCTGGTGCTGGACCAGGGAGGAGAGATCTTTAAAACCTTACACTACCTCAGCAACCTCATCCAGAGCATTAAGACGCCCCTGGGCACCAAAGAGAACCCCGCCCGGGTCTGCAGGGACCTCATGGACTGTGAGCAGAAGATGGTGGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000196739_MULTIEX5-1/3=C1-2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=0.626 C2=0.123
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(11.3=77.8)
A:
NO
C2:
PF0141013=COLFI=PU(39.1=47.4)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCAGGGGGTCCTATCCAAT
R:
CTCACAGTCCATGAGGTCCCT
Band lengths:
176-242
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)