BtaALTA0020457-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000030247 | NSMF
Description
NMDA receptor synaptonuclear signaling and neuronal migration factor [Source:HGNC Symbol;Acc:HGNC:29843]
Coordinates
chr11:105679259-105679996:+
Coord C1 exon
chr11:105679259-105679352
Coord A exon
chr11:105679878-105679881
Coord C2 exon
chr11:105679882-105679996
Length
4 bp
Sequences
Splice sites
5' ss Seq
TAGGTGCCC
5' ss Score
1.84
3' ss Seq
TGGCACGTCCTGCCCTCCAGGTA
3' ss Score
8.61
Exon sequences
Seq C1 exon
CGTTCGCCGAGCGGCGCGAGCGGAGCTTCAGCCGGTCCTGGAGCGACCCCACCCCCATGAAAGCCGACACCTCTCACGACTCCCGAGACAGTAG
Seq A exon
GTAG
Seq C2 exon
TGACCTGCAGAGCTCCCATTGCACCCTGGGCGAGGCTTTCGAGGACCTGGACTGGGAGACTGAGAAGGGCCTGGAGGCTGTAGCCTGTGACACTGAGGGCTTCGTGCCACCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000030247-15-11,15-10-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.774 A=NA C2=0.095
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF142521=DUF4347=PU(1.4=4.8)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCATGAAAGCCGACACCTCTC
R:
CTCAGTCTCCCAGTCCAGGTC
Band lengths:
104-108
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development