RnoALTA0035075-3/3 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000013987 | Sbno2
Description
strawberry notch homolog 2 [Source:RGD Symbol;Acc:1307194]
Coordinates
chr7:12513783-12514040:+
Coord C1 exon
chr7:12513783-12513877
Coord A exon
chr7:12513948-12513971
Coord C2 exon
chr7:12513972-12514040
Length
24 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
AATACCCCCACTTACCACAGATT
3' ss Score
6.52
Exon sequences
Seq C1 exon
ACCTGGCCCCCGGCATCAATGAAATACATGAAGAGAGCCAGCAGGTGTTCCTGGCACCCGGGCACCCACAGGACGGGCAGGTGGTCTTCTACAAG
Seq A exon
ATTAGCGTGGACCGCGGTATGAAG
Seq C2 exon
TGGGAAGAGGCATTCACTAGGTCGCTGGAGCTAAAAGGCCCCTATGACGGCTTCTACCTCTCCTACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013987-40-47,40-46,40-45-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.031 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138711=Helicase_C_4=PD(0.1=0.0)
A:
NA
C2:
NO
Main Skipping Isoform:
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:
GAAGAGAGCCAGCAGGTGTTC
R:
CCGTCATAGGGGCCTTTTAGC
Band lengths:
116-140
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]