HsaEX6032459 @ hg38
Exon Skipping
Gene
ENSG00000060718 | COL11A1
Description
collagen type XI alpha 1 chain [Source:HGNC Symbol;Acc:HGNC:2186]
Coordinates
chr1:102888577-102888919:-
Coord C1 exon
chr1:102888866-102888919
Coord A exon
chr1:102888723-102888758
Coord C2 exon
chr1:102888577-102888630
Length
36 bp
Sequences
Splice sites
3' ss Seq
TTTGCATTTGCATTTTGTAGGGT
3' ss Score
7.38
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
Exon sequences
Seq C1 exon
GGAATTCCTGGTCCTGCTGGTCCCTTAGGTCCACCTGGTCCTCCAGGTTTACCA
Seq A exon
GGTCCTCAAGGCCCAAAGGGTAACAAAGGCTCTACT
Seq C2 exon
GGACCCGCTGGCCAGAAAGGTGACAGTGGTCTTCCAGGGCCTCCTGGGTCTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000060718-'89-91,'89-90,90-91=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(20.8=88.9),PF0139113=Collagen=FE(27.0=100)
A:
PF0139113=Collagen=PD(0.1=0.0),PF0139113=Collagen=FE(17.5=100)
C2:
PF0139113=Collagen=FE(27.0=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:
GAATTCCTGGTCCTGCTGGTC
R:
GGAGACCCAGGAGGCCCT
Band lengths:
106-142
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains