RnoALTD0029458-3/3 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000060817 | Stam
Description
signal transducing adaptor molecule [Source:RGD Symbol;Acc:1564499]
Coordinates
chr17:81209924-81222990:+
Coord C1 exon
chr17:81209924-81210024
Coord A exon
chr17:81210025-81210455
Coord C2 exon
chr17:81222906-81222990
Length
431 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGG
5' ss Score
9.31
3' ss Seq
TATTCTTTTATGATCTACAGAGA
3' ss Score
5.88
Exon sequences
Seq C1 exon
ACTTCTCGAGTGCCGCGGTGTCGAGGGGCAGTCCCTGGGGACACCTCGGCACGCAGCGGACATGCCTCTCTTTGCCACCAACCCCTTCGACCAGGATGTTG
Seq A exon
GTAAGTGTTTTCACCGCCCCCTGTGAGTGCCCTCAACCCCCGAGACCACGAGCCCACGCCGCCCACTCTCTCCCTGCGTTCGTTCATTCTAAATTCCCAAGGCCGAGCCCACGTTCTTCTCTCCCGGGGCCCCTTGGTTCAGAGTTGGGAGAAGGTTGAGCGCTTGGCGCATCCTCTTTGAAAGAAATGGGACTTAGAACCTCTCCAATGGGCCTTGGTAAGGGACTTGGGGAGGGGGAGCTTTGATGGGATCGCTTAAGGGATTTGGGGTAAAGGGTTGCCTCGGGAGGAACAGACGACGAAACCATCTGCCGCTGGAGCTTGACTTCTGGGAGAAGTGCGAAGGGCTTGAGCAGATTGATTATAAGCTGTGTCGCCAAAGTGTTTGTCTGGCCCAATGGAAAGCGTCAGGAACTGGCAAAATGTTTTAG
Seq C2 exon
AGAAAGCAACCAGTGAGTTGAATACTGCTGAGGACTGGGGCCTCATCTTGGATATTTGTGATAAGGTTGGCCAATCTCGCACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000060817-0-3,1-3,2-3-3/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.034
Domain overlap (PFAM):
C1:
PF0079014=VHS=PU(6.7=64.3)
A:
NA
C2:
PF0079014=VHS=FE(20.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
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:
CTTCTCGAGTGCCGCGGT
R:
GTGCGAGATTGGCCAACCTTA
Band lengths:
182-613
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]