HsaEX0016308 @ hg19
Exon Skipping
Gene
ENSG00000197467 | COL13A1
Description
collagen, type XIII, alpha 1 [Source:HGNC Symbol;Acc:2190]
Coordinates
chr10:71707063-71716798:+
Coord C1 exon
chr10:71707063-71707098
Coord A exon
chr10:71713704-71713781
Coord C2 exon
chr10:71716760-71716798
Length
78 bp
Sequences
Splice sites
3' ss Seq
GTGGTTGGTTTTGTGAACAGGGA
3' ss Score
6.37
5' ss Seq
TTGGTATGG
5' ss Score
5.53
Exon sequences
Seq C1 exon
GGTTTACATGGACCACCCGGGGACAAGGGAAACCGG
Seq A exon
GGACACCGAGGTTTTAAAGGAGAGAAAGGGGAGCCGGGGTTACCAGGGCTGGACGGACTGGATGCCCCATGCCCATTG
Seq C2 exon
GGCGAAGATGGCTTACCAGTCCAAGGCTGCTGGAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197467_MULTIEX1-2/2=C1-C2
Average complexity
ME(1-2[97=100])
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=PD(13.4=75.0),PF0139113=Collagen=FE(15.7=100)
A:
PF0139113=Collagen=FE(38.5=100)
C2:
PF0139113=Collagen=PD(10.0=53.8)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
ENSP00000346553, ENSP00000348695, ENSP00000350463, ENSP00000381936, ENSP00000381938, ENSP00000381940, ENSP00000381941, ENSP00000381943, ENSP00000381944, ENSP00000381945, ENSP00000381946, ENSP00000381947, ENSP00000381949, ENSP00000381949f9774A, ENSP00000388774, ENSP00000428057, ENSP00000428342, ENSP00000430061
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTTACATGGACCACCCGGG
R:
CTTGTTCCAGCAGCCTTGGAC
Band lengths:
74-152
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Genotype-Tissue Expression Project (GTEx)
- 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)