HsaEX6032437 @ hg19
Exon Skipping
Gene
ENSG00000060718 | COL11A1
Description
collagen, type XI, alpha 1 [Source:HGNC Symbol;Acc:2186]
Coordinates
chr1:103427732-103431096:-
Coord C1 exon
chr1:103431043-103431096
Coord A exon
chr1:103428209-103428316
Coord C2 exon
chr1:103427732-103427821
Length
108 bp
Sequences
Splice sites
3' ss Seq
ATTTTGCTTATCTAATTTAGGGA
3' ss Score
7.98
5' ss Seq
AAGGTACAA
5' ss Score
6.82
Exon sequences
Seq C1 exon
GGATTTCAAGGCAAGACCGGCCCTCCTGGGCCAGGGGGAGTGGTTGGACCACAG
Seq A exon
GGACCAACCGGTGAGACTGGTCCAATAGGGGAACGTGGGCATCCTGGCCCTCCTGGCCCTCCTGGTGAGCAAGGTCTTCCTGGTGCTGCAGGAAAAGAAGGTGCAAAG
Seq C2 exon
GGTGATCCAGGTCCTCAAGGTATCTCAGGGAAAGATGGACCAGCAGGATTACGTGGTTTCCCAGGGGAAAGAGGTCTTCCTGGAGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000060718-'44-48,'44-46,46-48=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(22.1=100),PF0139113=Collagen=FE(21.5=100)
A:
PF0139113=Collagen=PD(24.7=52.8),PF0139113=Collagen=FE(44.3=100),PF0139113=Collagen=PU(35.6=72.2)
C2:
PF0139113=Collagen=PD(15.2=40.0),PF0139113=Collagen=FE(39.7=100)
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGATTTCAAGGCAAGACCGGC
R:
TCCAGGAAGACCTCTTTCCCC
Band lengths:
138-246
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)