RnoINT0103502 @ rn6
Intron Retention
Gene
ENSRNOG00000008810 | Nsmf
Description
NMDA receptor synaptonuclear signaling and neuronal migration factor [Source:RGD Symbol;Acc:619819]
Coordinates
chr3:2263492-2265001:+
Coord C1 exon
chr3:2263492-2263992
Coord A exon
chr3:2263993-2264925
Coord C2 exon
chr3:2264926-2265001
Length
933 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGG
5' ss Score
8.3
3' ss Seq
AGCCTCTTTTCTTCTTACAGATG
3' ss Score
10.51
Exon sequences
Seq C1 exon
ACCACCTGCTGGCCGACGCCTACTCTGGCCACGAAGGGTCCCCAGAGATGCAGCCTGCACCCCACAACAAGCGCCGCCTCTCCCTCGTCTCCAATGGCCGCTATGAGGGCAGCATCTCAGATGAGGCAGTCAGCGGGAAGACGGCTACAGAGGGCCCCCAGCCCCGTGTGTACACCATCTCTAGAGAGCCAGCCCTGCTGCCTGGCTCTGAAGCCGAAGCCATTGAGCTAGCAGTGGTGAAAGGGAGGAGGCAGCGGGAGCGGCACCCTCACCACCACAGCCAGCCCCTGCGCGCCAGCCCAGGCAGCAGCCGTGAGGACATCAGCAGGCCCTGCCAAAGCTGGGCAGGAAGCCGCCAGGGCTCCAAAGAATGCCCCGGATGTGCCCAGCTGGTCCCTGGTCCCTCCCCTCGGGCCTTCGGGTTGGAACAGCCACCTCTACCTGAGGCTTCCGGCCGTCACAAGAAGCTGGAAAGGATGTATAGTGTTGATGGAGTGTCTG
Seq A exon
GTGAGGGCCTTATCTTTGGCCTGGGCAGGCTTGGGGTGCCTGCTGGCCTGCAGCAGCAGCAGCAGTCACTAAAGCAGGGTGCTGTGGTGTGTGATATCCCTTCCATCTGAGCTCATCCCTTACCCAGATCCTGTGAACTGTGGCCTCTCTCAGTTTATCAAGGATACTTCCTGAAGGAGAGGGCCCAGAGGATCCTGAAGACAGAAAATGTGGCTTAATGGAAGATCAGGCTGTCTTCAGAAACTACAAGGGAGGGGAAGTTGTTTGGACCCCAAGATTATGGATGTCAAGTTGGAAGGGAGGGTTGAGGTACCCTGAGGCATGCTGTACCTAGTAACTATTCTTCCCCACTGAGCACCCACCTTAGGACAGTCCAGCAGCCATGTGTGGGCTGCAGACAATAGCCCCAGGGGACCCTGGGAGGTGACAACCCAGCAAGGTAGTCTGCATGTTAAGGACCTCTTACCCTCTGCGGGGATAAAAGGGGGGAAACGTCTGGCCAGCTGGCAGCTGAGAAGAGCTACCTCACATCCAAGGGGGACAAAATGTGACCGTGCAGAGACACCTCTGAGAATGTTCCTCATACTGAGCTGCTAGATGGAAAGTTAAACGGAGAACGCCTGAAGCCAGGGCATAGGAAGAGCTCAGGGCCTAAGAACACTCCCTACTAATGCAACAGGACCTGACTTTGGTTCTTAGCGCTCACATTAGACAGCTCACAGCCACCGTGAGCCCCACCAGGGCCAGGCACCTCTAGCCTCCCCTCCCCTCCCTCTCCTCTCAGAGAAATTAAAATGAGTCTTTGGCTGGGCCAGCTTTTTTCTCTCCTTGAGAGTCATCTTGCCCCTGGGCCCAGAGTCTCTTCAAAACAGAGAGGGGATTGGGCCTCTGGACTCCCGTCCTTGCCAGCCATAGCCTCTTTTCTTCTTACAG
Seq C2 exon
ATGACGTCCCCATCCGTACCTGGTTCCCCAAGGAAAACCCTTTCAGCTTCCAGACGGCAACCACAACTATGCAAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008810:ENSRNOT00000012129:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.940 A=NA C2=0.269
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTAGCAGTGGTGAAAGGGA
R:
TTGCATAGTTGTGGTTGCCGT
Band lengths:
350-1283
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]