DreINT0106771 @ danRer10
Intron Retention
Gene
ENSDARG00000060025 | nsmfa
Description
NMDA receptor synaptonuclear signaling and neuronal migration factor a [Source:ZFIN;Acc:ZDB-GENE-091204-32]
Coordinates
chr21:13383215-13383744:-
Coord C1 exon
chr21:13383692-13383744
Coord A exon
chr21:13383305-13383691
Coord C2 exon
chr21:13383215-13383304
Length
387 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
CCATCTCTCCAATTCACTAGCAT
3' ss Score
3.79
Exon sequences
Seq C1 exon
AAACTTCCGGAAGCATTTACGAATGGTGGGCAGCAGACGAATGAAAGCACAAA
Seq A exon
GTGAGTCTCCGTGTGAGAGTACAGTACGGATGAATGCACAGCTCCATTTGTGTTTGTCTTGTGTGTTATTATTTGTACACATGATGCATTGTGTTGTGCAGCAATGCATGTTGACATGTGCATGGAGGATGATTGACAGTTCTGAACAAAAATAAATCAACGGTTGAGGACAAGCGTTGGTCCATTTTGCTTCTGTGTGTGTTTCCAGTGTAGCAATGGAACTAAATACACATTGAAGCTTGTGAGAAATGTTTGTGTAGCTGGTTGGTGGTGTGGTGTGTTGGTGTGTGTGTGCTGAGGCCCTTGGTCTGTGAGGATTATGGGACGTTGCGCGTGTGCGTGCGTGCGTGTGTGTGTGTGTGTGTGACCATCTCTCCAATTCACTAG
Seq C2 exon
CATTTGCAGAGCGCAGGGCGAAGAGTTTCAACCGATCCTGGAGCGATCCAACCCCTGTCAAACAAGACTCTCTAACCGACTCAAAAGACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060025:ENSDART00000139568:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.500 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
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
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:
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]