RnoALTA0035602-1/2 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000013679 | Sema4d
Description
semaphorin 4D [Source:RGD Symbol;Acc:1310554]
Coordinates
chr17:13538711-13544719:+
Coord C1 exon
chr17:13538711-13538914
Coord A exon
NA
Coord C2 exon
chr17:13544691-13544719
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TTGATTCCCGCAATCAGAAGGAA
3' ss Score
0.45
Exon sequences
Seq C1 exon
CCTCATCTCCTAAGTCCTTCCCTCCTCCTGGCTCCTCTCTGTCCTGTCTGGGCCCTGACTCATCTTCTCCCAGAAGCCCTTGGTCGGCCTTGGCCTCAGGGCCCAACAGCCGTAAGCAGGTCGCCTTGCTGCCACCCTTCTTGAGTGACCAGGCACAGCGGGTGCAGGCGCTGGGGACCTTCTACCTCTTCTGCCAGGCCACAG
Seq A exon
NA
Seq C2 exon
GAACTGGATAGTTAAAGAACCAACAGAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013679-45-26,45-25-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence exclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.237 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138951=Ig_2=PU(26.4=34.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
ENSRNOT00000076794fB13116
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTCTTGAGTGACCAGGCAC
R:
TCTGTTGGTTCTTTAACTATCCAGT
Band lengths:
96-99
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]