BtaINT0104034 @ bosTau6
Intron Retention
Gene
ENSBTAG00000030247 | NSMF
Description
NMDA receptor synaptonuclear signaling and neuronal migration factor [Source:HGNC Symbol;Acc:HGNC:29843]
Coordinates
chr11:105678870-105679348:+
Coord C1 exon
chr11:105678870-105678922
Coord A exon
chr11:105678923-105679258
Coord C2 exon
chr11:105679259-105679348
Length
336 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGG
5' ss Score
5.42
3' ss Seq
GGGCTCTGCTCTCACTGCAGCGT
3' ss Score
7.61
Exon sequences
Seq C1 exon
GAACTTCCGCAAACACCTGCGCATGGTCGGCAGCCGGCGGGTGAAGGCCCAGA
Seq A exon
GTAAGGCCCAGAGTGAGGCGGACGGGTGGGCGGTGCTGCTCTTGGCCGACTGGGGCTTGGCGTGCTGCTCTCTGCTCCCCCAAGGCGGGTGTCGCCACCGGGCACCTTCCCACACCCAGGCTCCGCCCAAAGGACAGGGCCCCGCCCCTTCACGCAGACTCCGCCCGTGTCCCCCGACCCTGCCCGGTCCGCCTTTTGCCCCTCTCCTACCCGTCCCATTGCAGCGGCATCCTGCACCCTCCAGACCCCGCCGGCCCGCGTCCTGCCCAGCCGCCGATCCCAGCCACCTCCCGTGGCTGCAGGCCACGTCCCTAACGGGCTCTGCTCTCACTGCAG
Seq C2 exon
CGTTCGCCGAGCGGCGCGAGCGGAGCTTCAGCCGGTCCTGGAGCGACCCCACCCCCATGAAAGCCGACACCTCTCACGACTCCCGAGACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000030247:ENSBTAT00000016087:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.774
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development