RnoINT0140866 @ rn6
Intron Retention
Gene
ENSRNOG00000018845 | Snapc4
Description
small nuclear RNA activating complex, polypeptide 4 [Source:RGD Symbol;Acc:1309048]
Coordinates
chr3:3820471-3821274:-
Coord C1 exon
chr3:3821193-3821274
Coord A exon
chr3:3820576-3821192
Coord C2 exon
chr3:3820471-3820575
Length
617 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGT
5' ss Score
9.82
3' ss Seq
CCACTCTACCTACCTTGCAGGCT
3' ss Score
8.37
Exon sequences
Seq C1 exon
GGAAGCACTGGGAGAAAGACTTGCTCCGGAAGTCTGTAGTGAGTGACCGCCTGCAACGCCTGCTTCAGCCCAAGTTACTGAA
Seq A exon
GTAAGTGTGGAAACAGCATCATAGCCGTTCCCAGAGGGGAGAGCCAGGCGGCCACGAGGCTGGTGAGGTTCATGCTAGGTGCTCTGCCTCTTCTGCTGCCCTTTCAGCGCTGTGGTGTCAGTGTCTGTTGATGGGTACACACCATGTGACCATATCGTGTGGTGCTTAGTAGGAGTACGCAGTGAGGAGCACTGTTGTTTGATAGATTGCCAACATCAGTATTGAACACAGAAGTCCAGAAGTGGCTTGTGCCCTCTGGCCCAGCCTAAGAGACATATCAGCTCTGGTGCTGACAACATTAGTGCTCAATACTGACGGTGGGAAAGGCAGTTTTCCTGAAGTCTGAGAGAGCCAGCTCTTCTCTCCCAGATACAAGCAGCTACCACCTGACTGTAAACAACCCGCTCTGGATGCTGCTGTTCTGGTGGTAGGGGTACCCAGAGGTGGGGCCAGGTCTTCCTTTGTGGCAAGGGATCAAGGCAGGAGAGAAAGCACACTCGTATGCGGACTTTCCAACGTTGAGCTGGGAGGCTGGAACAGAAGCAGCCCAGAGAGCAGGGCTCAGCTTACACAGCACATCCCATCCGCAACTCTCCTCCACTCTACCTACCTTGCAG
Seq C2 exon
GCTTGAGTACTTACAAGAAAAACAGAGCCGAGTCTCCAGTGAGTTGGAAAAGCAGGCCCTGGAGAAGCAGATTAAGGAAGCAGAGAAGGAAATTCAGGACATCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018845:ENSRNOT00000061682:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.028
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCACTGGGAGAAAGACTTGCT
R:
TGATGTCCTGAATTTCCTTCTCTGC
Band lengths:
182-799
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]