DreEX6009690 @ danRer10
Exon Skipping
Gene
ENSDARG00000079611 | sema4c
Description
sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4C [Source:ZFIN;Acc:ZDB-GENE-080303-16]
Coordinates
chr5:14060997-14084099:-
Coord C1 exon
chr5:14083910-14084099
Coord A exon
chr5:14064554-14064708
Coord C2 exon
chr5:14060997-14061059
Length
155 bp
Sequences
Splice sites
3' ss Seq
TTTCTTTCCTTTCTCTTCAGATG
3' ss Score
12.59
5' ss Seq
CAGGTATGT
5' ss Score
9.8
Exon sequences
Seq C1 exon
GAGCCGTCGTGCGCATCTGGAGCCTCCACACCAATCAGAACCCCCTGCTTCCTCATCCAATCAGAGCCCTGTAAAAGGAGAATAGAAATGGGGTGTGCGAAAGTTCTCCTTGTGATCTTCGTGATCGGCTTTGAAAAGGGGATCTGCGTCAACTGGAACCCCGTCCCACGCAAGACTGTAAAATATAATG
Seq A exon
ATGTGCATGACAGTATGGCGAGGTTTCGTGCTGTCGGGGTGTGGAACTACACCATGTTGACCCTGGCAGAACACGAGAGGGTTTTGTATGTGGGCGCCAGAGAGAACATCTTCGCCCTGGATCCCAACGACATCAGCAGACAGCTCCGACCACAG
Seq C2 exon
ATTGAGTGGTCTGCTCCTGCAGAAAAGAAAAAAGAGTGTGCAGCGAAGGGGAAGAATAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079611-'3-4,'3-2,4-4=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.003 C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
PF0140314=Sema=PU(8.1=67.3)
C2:
PF0140314=Sema=FE(4.7=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTCGTGCGCATCTGGAG
R:
TATTCTTCCCCTTCGCTGCAC
Band lengths:
244-399
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]