HsaEX6032441 @ hg38
Exon Skipping
Gene
ENSG00000060718 | COL11A1
Description
collagen type XI alpha 1 chain [Source:HGNC Symbol;Acc:HGNC:2186]
Coordinates
chr1:102939035-102946956:-
Coord C1 exon
chr1:102946849-102946956
Coord A exon
chr1:102940327-102940434
Coord C2 exon
chr1:102939035-102939088
Length
108 bp
Sequences
Splice sites
3' ss Seq
TCTTTGGATATTCAATACAGGGA
3' ss Score
3.85
5' ss Seq
AAGGTTGGT
5' ss Score
8.46
Exon sequences
Seq C1 exon
GGCTCACCAGGAGAACGTGGGTCAGCAGGTACAGCTGGCCCAATTGGTTTACCAGGGCGCCCGGGACCTCAGGGTCCTCCTGGTCCAGCTGGAGAGAAAGGTGCTCCT
Seq A exon
GGAGAAAAAGGTCCCCAAGGGCCTGCAGGGAGAGATGGAGTTCAAGGTCCTGTTGGTCTCCCAGGGCCAGCTGGTCCTGCCGGCTCCCCTGGGGAAGACGGAGACAAG
Seq C2 exon
GGTGAAATTGGTGAGCCGGGACAAAAAGGCAGCAAGGGTGACAAGGGAGAAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000060718-'64-66,'64-65,65-66=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=PD(18.3=47.2),PF0139113=Collagen=FE(40.7=100)
A:
PF0139113=Collagen=PD(36.0=86.1)
C2:
PF0139113=Collagen=PU(20.3=77.8)
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:
CAGGAGAACGTGGGTCAGCAG
R:
TTTTCTCCCTTGTCACCCTTGC
Band lengths:
154-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains