RnoEX6010551 @ rn6
Exon Skipping
Gene
ENSRNOG00000021101 | Sema6c
Description
semaphorin 6C [Source:RGD Symbol;Acc:3659]
Coordinates
chr2:196340374-196341262:+
Coord C1 exon
chr2:196340374-196340526
Coord A exon
chr2:196340706-196340879
Coord C2 exon
chr2:196341116-196341262
Length
174 bp
Sequences
Splice sites
3' ss Seq
CCTGAAGCCTACCGCTCTAGGGC
3' ss Score
2.61
5' ss Seq
CCGGTAAGT
5' ss Score
10.91
Exon sequences
Seq C1 exon
GCCAGGGTCCTGTGCAGGTGTGGGTGCAGCTGCCTTATTCTCCTCCTCTCAAGACCTGCCTGACGATGTCCTGCTCTTCATCAAGGCACACCCACTGCTGGATCCCGCTGTGCCACCTGCCACCCATCAACCTCTCCTCACTCTGACTAGCAG
Seq A exon
GGCTCTACTGACCCAGGTAGCTGTGGATGGTATGGCTGGCCCCCACAGAAATACTACAGTCCTGTTTCTTGGCTCCAATGATGGGACAGTGCTGAAGGTGCTACCTCCAGGGGGACAGTCTCTGGGACCCGAGCCTATCATATTGGAAGAGATTGATGCCTACAGCCATGCCCG
Seq C2 exon
GTGCAGTGGGAAGCGGTCACCCCGAGCTGCTCGACGGATCATAGGGCTGGAGCTGGACACTGAGGGTCACAGGCTTTTTGTGGCCTTTCCTGGATGCATCGTCTACCTCTCTCTCAGCCGCTGTGCCCGGCATGGAGCATGTCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021101-'20-23,'20-21,21-23=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.038 A=0.051 C2=0.000
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(12.3=100)
A:
PF0140314=Sema=FE(13.9=100)
C2:
PF0140314=Sema=PD(0.2=2.0),PF0143720=PSI=PU(14.5=18.0)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGCTGCCTTATTCTCCTCC
R:
CGGCTGAGAGAGAGGTAGACG
Band lengths:
248-422
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]