HsaALTD0001551-2/2 @ hg19
Alternative 5'ss
Gene
ENSG00000196739 | COL27A1
Description
collagen, type XXVII, alpha 1 [Source:HGNC Symbol;Acc:22986]
Coordinates
chr9:116994102-116997932:+
Coord C1 exon
chr9:116994102-116994138
Coord A exon
chr9:116994139-116994146
Coord C2 exon
chr9:116997879-116997932
Length
8 bp
Sequences
Splice sites
5' ss Seq
AAGGTGATC
5' ss Score
4.41
3' ss Seq
CTTTGCTGGTGTGTACTTAGGGT
3' ss Score
8.86
Exon sequences
Seq C1 exon
GGACTGATGGGCAGCGTGGGGGAGCCCGGACTGAAAG
Seq A exon
GTGATAAG
Seq C2 exon
GGTGAACAAGGGGTTCCAGGTGTGTCAGGAGATCCCGGATTCCAAGGAGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000196739-24-26,25-26-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(20.7=100)
A:
NA
C2:
PF0139113=Collagen=FE(20.7=100),PF0139113=Collagen=PU(10.5=44.4)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)