RnoALTD0026977-3/3 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000016512 | Sema3b
Description
semaphorin 3B [Source:RGD Symbol;Acc:1310079]
Coordinates
chr8:116360996-116363134:-
Coord C1 exon
chr8:116363081-116363134
Coord A exon
chr8:116362585-116363080
Coord C2 exon
chr8:116360996-116361180
Length
496 bp
Sequences
Splice sites
5' ss Seq
CAGGCAAGT
5' ss Score
3.1
3' ss Seq
TGCCGACTCTTCTCTTCCAGATC
3' ss Score
11.25
Exon sequences
Seq C1 exon
CTCCCAGAAACTGAGCTGAGTGTGCAGTCATCCCTTAGCCGTGTGGAGGGACAG
Seq A exon
GTAAGGACCCAGAGTTCTTACTTAAGGACCTGGCCCACCGTTCCCTCTGCCTCCTGCACAGAGCTTTCAGGGAGGGACCCGGCTGATGCTTCTCCCTGCTTTGCCTTGACCTACTGCCAGGTTTCTGGGACTACCACCTGGGGCACCCTTCACCTTGAGACCCAGCAAAAGAGGGCCATCTCTACCTGCCCAACCCTTGCTCTCTTTCTGCTCATGCGGGGCCACTGTCTCCAGCCAGTTCCAGCTGCTTGTGCCGGTCACCCGATCCACCCTGTAGCCCTGCAAACTTTATGGTATTCTGGGCGGCGGCTGGCCTGGTGGAGGCGGGGGCTTCTACTTAAAGGAGCCATCAGAGGGTGCCCTGTGGGCCCTAGCCTTCTTCCCTTCCTTGACAAGAAGGGTCAAGGTGAGAGACACCTTTGCAGAGTTCTTGGTGGAGAACGGGAAGGCAGCCGTGTCAGCCTCACAGACTTCTAGAACCTGAGAAGAGGCTCAG
Seq C2 exon
ATCCCGGGGCAGAGTCCAGGGCTGCCGAAGGCTCCTCCACACGCCTGCTGAACCCTGAGCGCCCTGTGCTGCCGGCATGGGGCGGGCTGAGGCCGCCGCCATGATCCCAGGCCTGGCCCTTCTCTGGGTAGCAGGGCTGGGGGATGCTGCCCCTAACCTTCCCCGCCTTCGGCTCTCCTTTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016512-1-3,2-3,3-3-3/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
CCCAGAAACTGAGCTGAGTGT
R:
GAAGGCGGGGAAGGTTAGGG
Band lengths:
222-718
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]