RnoALTA0035067-3/3 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000001064 | Sbno1
Description
strawberry notch homolog 1 [Source:RGD Symbol;Acc:1310005]
Coordinates
chr12:37605184-37608208:+
Coord C1 exon
chr12:37605184-37605288
Coord A exon
chr12:37607896-37607901
Coord C2 exon
chr12:37607902-37608208
Length
6 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGA
5' ss Score
9.21
3' ss Seq
GAAATAATTTTCTTTTTTAGCAG
3' ss Score
7.53
Exon sequences
Seq C1 exon
TCGGTGCCACTTAGTGCATTAGAACTAGGTTTGGAGACAGAAGCAGCAATTCCTGTTAAACAAGAACCCGAGATGATGTCTACTCCGGCACTGTTAAATGTGAGG
Seq A exon
CAGCAG
Seq C2 exon
CCTCCATCCACTACAACATTTGTGCTGAATCAAATCAATCAACTTCCAACCTTGGGATCTACAATTGTAATGACTAAAACACCACCTGCAACAACGAATAGGCAAACCATCACTTTGACTAAGTTCATCCAGACCACTGCAAACACACGCCCTTCAGTTTCAGCACCAGCAGTACGGAATGCCATCCCCCCTGCTCCCGCAAAAGACCAAGTTCAGCTAAAGGATTTACTCAAAAATAATAGTTTAAATGAACTCATGAAACTGAAGCCACCTGCCAATATTGCTCAGCCAGTTGCAACTGCGGCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001064-4-9,4-8,4-7-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.829 A=NA C2=0.872
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTTTGGAGACAGAAGCAGCA
R:
AGCACAAATGTTGTAGTGGATGGA
Band lengths:
104-110
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]