RnoALTD0027374-1/4 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000054560 | Sh2d3c
Description
SH2 domain containing 3C [Source:RGD Symbol;Acc:1307287]
Coordinates
chr3:11779240-11782877:+
Coord C1 exon
chr3:11779240-11779435
Coord A exon
NA
Coord C2 exon
chr3:11782749-11782877
Length
0 bp
Sequences
Splice sites
5' ss Seq
CTGGTACAG
5' ss Score
3.91
3' ss Seq
ACCTCGCTGTCCCCATGCAGTTC
3' ss Score
8.5
Exon sequences
Seq C1 exon
GCGATGAGGTAATCGCGCCGCTGAGAGGCACGCGCAGCCGGTGCCCAGCCCGGTCGGTCCCCGCGCCCCTGCCCCTTCGGCCGTCACCCCCGGTACGCTCGGGGGACCCGGGTCTCTCGGCCGCACCATGACCGAGCGTTGTAGCCTGTGGAGTGCGCTGTCCGCCGCCGCCTGCTGCTTCTACCGTGGCTCGCTG
Seq A exon
NA
Seq C2 exon
TTCTCCAAGGAGAAGTACATTCTCGACTCCTCGCCAGAGAAGCTGCACAAGGAGCTGGAGGAAGAGCTGAAGCTCAGCAGTACAGACCTCCGCAGCCATGCCTGGTATCATGGACGTATCCCTCGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000054560-6-11,7-11,8-11,9-11-1/4
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.081
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0001719=SH2=PU(9.9=18.6)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
GAGCGTTGTAGCCTGTGGAG
R:
AGCTTCTCTGGCGAGGAGTC
Band lengths:
107-113
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]