BtaEX6035568 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000001941 | SEMA4D
Description
Bos taurus sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4D (SEMA4D), mRNA. [Source:RefSeq mRNA;Acc:NM_001098160]
Coordinates
chr8:90256804-90262973:+
Coord C1 exon
chr8:90256804-90257013
Coord A exon
chr8:90261126-90261223
Coord C2 exon
chr8:90261598-90262973
Length
98 bp
Sequences
Splice sites
3' ss Seq
GCACCCCCTCTATCTTGCAGAGG
3' ss Score
8.71
5' ss Seq
TGGGTACGT
5' ss Score
7.7
Exon sequences
Seq C1 exon
GTCCTGCGGATGTTCACTTCCTCTGGGAGAAGAATGGGCGCGAGCTGGAGGTGTGTGTGCCCACGCAGACCCACGCACTGCCCGATGGCCGGGCCCTTGTGCTCAGCTGGCTGCGAGATGCGCTCCGGGAGAGCGCCGAGTACCGCTGCTCTGCGCTCTCCCGGGCCGGGAACAAGACCTCCAAGGCGCGCGTCACCGTGACCAGGCTCG
Seq A exon
AGGCGACCCAGCAGGAGAGGTGGACCAGAGAGCTCGCCAGCTGGAGGGCCGTGGTTGGGGAGCACGACCGCATGATGCAGAGCTGGAGGAAGGCGTGG
Seq C2 exon
GAAAGCTGTAACCAAGACGCATTCTAGCCACAGGAAGCCGTGCTGACCAGGCTGACCGTGCTGCCACCCGACACACAGCCCCGGAGGCCTCAGGGCAGTGAGCTCCCTGTCTGCGGGACACAGCTCTTCGGGTTGCACAGCCGAGAACACGGAGCCCTGAGGGGGCCTGCGGCAGTAGCCAGAACGTGTTTTAATTAGGTACTTAGATGGGACAGAATGGCCTGTCTGGCAGGAGCAGGAAACCGGGGTTAACAGGCTACAGACAGGAACTCTGGTTAAGACAGCAGTGTGCGTGATGGGTCCTTTTCCAGAAGCACTGTTGTTACACTCCACAGGTCTGAGTTACTTTCATGTCATGCAATGGGTTGTCCTTCACACAGCCGAGTGTTAGCTCAGCTCTCGTGACTGCTGGTTTTACTGCTCTGGAGCCCCCTTCACACTCAGCTGCTCATCTCTAGGAGACAAGGCAGGAAGGACAAGGCTCCAGATGACCAGAATTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001941-'31-34,'31-32,33-34=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.099 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF138951=Ig_2=PD(72.5=93.0)
A:
NO
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAACAAGACCTCCAAGGCG
R:
CAACCCGAAGAGCTGTGTCC
Band lengths:
177-275
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]