RnoALTA0027085-2/2 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000008810 | Nsmf
Description
NMDA receptor synaptonuclear signaling and neuronal migration factor [Source:RGD Symbol;Acc:619819]
Coordinates
chr3:2267381-2268034:+
Coord C1 exon
chr3:2267381-2267470
Coord A exon
chr3:2267916-2267919
Coord C2 exon
chr3:2267920-2268034
Length
4 bp
Sequences
Splice sites
5' ss Seq
ACAGTAGGT
5' ss Score
5.67
3' ss Seq
GTGACCCCTCCTGCCTCCAGGCA
3' ss Score
9.53
Exon sequences
Seq C1 exon
CGTTCGCTGAGCGGCGCGAACGGAGCTTCAGCCGGTCCTGGAGCGACCCCACCCCTATGAAAGCCGACACCTCCCACGACTCCCGAGACA
Seq A exon
GCAG
Seq C2 exon
TGACCTACAGAGCTCACACTGCACCCTGGATGAGGCTTGTGAGGACCTGGACTGGGACACAGAGAAAGGCCTGGAGGCCACGGCCTGCGACACTGAGGGCTTCTTGCCACCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008810-14-17,14-16-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.839 A=NA C2=0.100
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
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:
CACCCCTATGAAAGCCGACAC
R:
TTCTCTGTGTCCCAGTCCAGG
Band lengths:
107-111
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]