RnoALTD0027029-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000004812 | Sema6d
Description
semaphorin 6D [Source:RGD Symbol;Acc:1310910]
Coordinates
chr3:116952472-116956169:+
Coord C1 exon
chr3:116952472-116952627
Coord A exon
chr3:116952628-116952639
Coord C2 exon
chr3:116954351-116956169
Length
12 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
3' ss Seq
ACTTTGCATGTGTGTTGCAGGTG
3' ss Score
9.6
Exon sequences
Seq C1 exon
ACATGGAGGTACCCTCATCTTCTGTTACCACTGTGGCAAGTAGCCCAGAAATTACATCTAAAGTGATTGATACCTGGAGACCTAAACTGACGAGCTCCCGGAAATTTGTAGTTCAAGATGACCCAAACACTTCCGATTTTACTGATACTATATCAG
Seq A exon
GTATCCCAAAGG
Seq C2 exon
GTGTACGGTGGGAAGTCCAGTCTGGAGATTCCAACCAGATGGTCCACATGAATGTCCTCATCACCTGCGTGTTTGCAGCTTTTGTCTTGGGCGCGTTCATCGCAGGAGTGGCTGTGTACTGCTATCGTGACATGTTTGTTCGGAAGAACAGAAAGATCCATAAAGATGCAGAATCGGCCCAGTCATGCACAGATTCCAGTGGAAGCTTTGCCAAGCTGAATGGTCTCTTTGACAGCCCCGTCAAGGAGTACCAGCAGAACATCGATTCACCCAAACTGTACAGCAACCTGCTGACCAGTCGGAAGGAGCTGCCTCCCAACACGGATCCAAAGTCCATGGCCATGGACCATCGAGGCCAGCCTCCAGAGCTGGCTGCTCTCCCCACGCCAGAGTCTACACCTGTACTCCACCAGAAGACCCTGCAGGCCATGAAGAGCCACTCCGATAAGGCCCATGGCCATGGTGCTTCAAGGAAGGAACACCCCCAGTTTTTTCCTTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004812-35-32,36-32-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.055 A=NA C2=0.788
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0143720=PSI=PD(7.9=1.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACGAGCTCCCGGAAATTTGT
R:
CAGACTGGACTTCCCACCGTA
Band lengths:
92-104
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]