HsaEX6032439 @ hg38
Exon Skipping
Gene
ENSG00000060718 | COL11A1
Description
collagen type XI alpha 1 chain [Source:HGNC Symbol;Acc:HGNC:2186]
Coordinates
chr1:102946849-102962265:-
Coord C1 exon
chr1:102962176-102962265
Coord A exon
chr1:102961866-102961919
Coord C2 exon
chr1:102946849-102946956
Length
54 bp
Sequences
Splice sites
3' ss Seq
ATTTTTTTCACTTTTCCCAGGGT
3' ss Score
8.49
5' ss Seq
GTTGTAAGT
5' ss Score
8.3
Exon sequences
Seq C1 exon
GGTGATCCAGGTCCTCAAGGTATCTCAGGGAAAGATGGACCAGCAGGATTACGTGGTTTCCCAGGGGAAAGAGGTCTTCCTGGAGCTCAG
Seq A exon
GGTGCACCTGGACTGAAAGGAGGGGAAGGTCCCCAGGGCCCACCAGGTCCAGTT
Seq C2 exon
GGCTCACCAGGAGAACGTGGGTCAGCAGGTACAGCTGGCCCAATTGGTTTACCAGGGCGCCCGGGACCTCAGGGTCCTCCTGGTCCAGCTGGAGAGAAAGGTGCTCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000060718-'60-64,'60-63,61-64
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=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(15.2=40.0),PF0139113=Collagen=FE(39.7=100)
A:
PF0139113=Collagen=FE(18.3=100),PF0139113=Collagen=PU(19.8=94.4)
C2:
PF0139113=Collagen=PD(18.3=47.2),PF0139113=Collagen=FE(40.7=100)
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:
GGTGATCCAGGTCCTCAAGGT
R:
AACCAATTGGGCCAGCTGTAC
Band lengths:
139-193
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains