HsaALTD0005868-2/2 @ hg19
Alternative 5'ss
Gene
ENSG00000095370 | SH2D3C
Description
SH2 domain containing 3C [Source:HGNC Symbol;Acc:16884]
Coordinates
chr9:130513451-130517561:-
Coord C1 exon
chr9:130517364-130517561
Coord A exon
chr9:130517358-130517363
Coord C2 exon
chr9:130513451-130513579
Length
6 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TCTTGCTGTTTTCTACCCAGTTC
3' ss Score
8.47
Exon sequences
Seq C1 exon
GATGAGGTAATCGCGCCGCTGAGAGGCACGCGCAGCCGGTGCCTAGCCGGTTGGTCCCTGCGCCCCTGCCCCGCCGGCCACCGCCCCCCCACACCGTCCCGGCCCCGGCAGCCTGGCCCCACCATGACCGAGCGGTGCAGCCTGTGGAGTGCCCTGTCGGCCGCCGCCTGCTGCTTCTACCGCGGCTCCTTCGTGCAG
Seq A exon
GTGCAG
Seq C2 exon
TTCTCCAAGGAGAAGTACATCCTGGACTCATCGCCAGAGAAACTCCACAAGGAATTGGAGGAGGAGCTCAAACTCAGCAGCACGGATCTCCGCAGCCATGCCTGGTACCATGGCCGCATCCCCCGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000095370-12-15,13-15-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.033
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0001719=SH2=PU(9.9=18.6)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCTACCGCGGCTCCTTC
R:
TGCTGAGTTTGAGCTCCTCCT
Band lengths:
104-110
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)