BtaALTA0026910-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000013857 | SH2D3A
Description
Bos taurus SH2 domain containing 3A (SH2D3A), mRNA. [Source:RefSeq mRNA;Acc:NM_001205669]
Coordinates
chr7:18958065-18958513:+
Coord C1 exon
chr7:18958065-18958180
Coord A exon
chr7:18958316-18958338
Coord C2 exon
chr7:18958339-18958513
Length
23 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
AACCTCCCCACTGCCCCCAGACC
3' ss Score
7.91
Exon sequences
Seq C1 exon
GCCACAGGTGTCCTGGGAGTGACCAAGGCTCAGCGGGGCGCCATGGGGGTCGCCTCCGGTCTGGAGCTGCTCACACTTCCCCACGGGCATCGCTTGAGATTGGAATTGCTGGAGAG
Seq A exon
ACCCTTGCCCTCCGCCTCTACAG
Seq C2 exon
GCTCGAGACGCTGGCGTTGGCGGGGGCGCTGGCAGTGCTGGGCTGCGCAGGGCCGCTGGAAGAACGCGCGGCCGCCCTGAGGGGCCTGGTGGAGCTGGCCGTGGCGCTGCGGCCAGGGGCGGTGGGGGACCTGCCCGGACTGGCCGCGGTGATGGGCGCCTTGCTCATGCCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013857-8-12,8-11-2/2
Average complexity
Alt3
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=0.000
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=PU(6.7=20.5)
A:
NA
C2:
PF0061714=RasGEF=FE(48.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
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:
GCTGCTCACACTTCCCCAC
R:
GTTCTTCCAGCGGCCCTG
Band lengths:
116-139
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development