RnoINT0140851 @ rn6
Intron Retention
Gene
ENSRNOG00000018845 | Snapc4
Description
small nuclear RNA activating complex, polypeptide 4 [Source:RGD Symbol;Acc:1309048]
Coordinates
chr3:3818572-3818921:-
Coord C1 exon
chr3:3818815-3818921
Coord A exon
chr3:3818667-3818814
Coord C2 exon
chr3:3818572-3818666
Length
148 bp
Sequences
Splice sites
5' ss Seq
GCTGTAAGT
5' ss Score
8.56
3' ss Seq
TGTTTACTTCTTTACTGCAGAAA
3' ss Score
8.58
Exon sequences
Seq C1 exon
TTGTCTACTTCATGGAAGGGAGAGACTCCATGCAGCTGATCTACCGTTGGACCAAGAGCTTAGATCCCAGCCTGAAAAGGGGATTCTGGGCCCCAGAGGAAGATGCT
Seq A exon
GTAAGTTCGGCACCCAGAGAAAACTGTTCCGGGAAGTTCGCCTGGTAGTCCTGAGTGCAGTCATATGCCCTTCTTAGCTGAGAGACCTCAGGGTGGGGAGGGTATGGCTGTCTCGTGGACCTTCTTTCTGTTTACTTCTTTACTGCAG
Seq C2 exon
AAATTGCTTCAAGCTGTTGCCAAGTATGGGGCGCAGGACTGGTTTAAAATCCGGGAAGAGGTGCCAGGTAGGAGCGATGCCCAGTGCAGAGACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018845:ENSRNOT00000061682:11
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=0.000
Domain overlap (PFAM):
C1:
PF139211=Myb_DNA-bind_6=PU(9.8=16.7)
A:
NA
C2:
PF139211=Myb_DNA-bind_6=FE(50.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGTCTACTTCATGGAAGGGAGAGA
R:
GCACTGGGCATCGCTCCTA
Band lengths:
194-342
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]