RnoEX0018725 @ rn6
Exon Skipping
Gene
ENSRNOG00000020884 | Cd6
Description
Cd6 molecule [Source:RGD Symbol;Acc:2312]
Coordinates
chr1:226855647-226857896:-
Coord C1 exon
chr1:226857585-226857896
Coord A exon
chr1:226856992-226857294
Coord C2 exon
chr1:226855647-226855709
Length
303 bp
Sequences
Splice sites
3' ss Seq
CATCCATCACCTGCCCACAGAGC
3' ss Score
8.42
5' ss Seq
CAGGTATTC
5' ss Score
6.49
Exon sequences
Seq C1 exon
AGAACCAGGCTGTGCGGTTAGTGGATGGTGGCAGTCGCTGCGCTGGCCGCGTGGAGATGCTGCAGCATGGTGAATGGGGAACAGTGTGCGATGACACGTGGGACCTGGATGATGCAAACGTAGTGTGTAAGCAGCTGAAGTGTGGCTGGGCAGTGAAGGCACTGGCCGGCTTGCACTTCACCCCAGGCCAAGGACCCATCCACCGTGACCAAGTGAACTGCTCTGGGACCGAGGCCTATCTGTGGGACTGCCCGGGGCGGCCAGGAGACCAGTACTGCGGTCACAAGGAGGATGCAGGAGTGGTGTGCTCAG
Seq A exon
AGCACCAGTCCTGGCGCCTGACTGGAGGTGTTGACTCCTGCGAAGGGCAAGTGGAAGTGTACTTCCGGGGTGTCTGGAGCACCGTGTGTGACAGCGAATGGTACCCATCCGAGGCCAAAGTGCTCTGTCAGTCCTTGGGTTGTGGATCAGAAGTGGACCGGCCCAAGGGGCTGCCACACTCCCTGGCAGGCAGAATGTACTACTCCTGTAAAGGGGAGGAGCTCACCCTCAGCACCTGCTCCTGGCGGTTCAACAATTCCAACTTGTGCAGCCAGTCGCTGGCCGCAAGGGTTGTCTGCTCAG
Seq C2 exon
GCTCCCAGAGACATCCCAATCTGTCGACTTCTGAAGTGCCTTCCAGAGTTCCGGTCACCATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020884_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.045
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=92.4)
A:
PF0053013=SRCR=WD(100=92.2),PF054546=DAG1=PU(18.8=28.4),PF151021=TMEM154=PU(15.0=14.7)
C2:
PF054546=DAG1=FE(13.6=100),PF151021=TMEM154=FE(21.0=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTAGTGGATGGTGGCAGTCG
R:
ATGGTGACCGGAACTCTGGAA
Band lengths:
357-660
Functional annotations
There are 1 annotated functions for this event
PMID: 17371992
Exon 5 skipping (CD6Deltad3) in the third SRCR (scavenger receptor cysteine-rich) domain causes a failure to localize in the immunological synapse and bind CD166.
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]