RnoINT0140868 @ rn6
Intron Retention
Gene
ENSRNOG00000018845 | Snapc4
Description
small nuclear RNA activating complex, polypeptide 4 [Source:RGD Symbol;Acc:1309048]
Coordinates
chr3:3819813-3820397:-
Coord C1 exon
chr3:3820325-3820397
Coord A exon
chr3:3819978-3820324
Coord C2 exon
chr3:3819813-3819977
Length
347 bp
Sequences
Splice sites
5' ss Seq
AACGTAAGT
5' ss Score
10.74
3' ss Seq
CTGTGTTCTCGTGGGTGTAGTTT
3' ss Score
6.47
Exon sequences
Seq C1 exon
CCAGCTCCCAGAGGAAGCTTTGTTGGGGAACCGGCTGGACAGCCACGACTGGGAGAAGATTTCCAATGTTAAC
Seq A exon
GTAAGTTAGGAAGACCTGGGAGCCCACTGCTCTAGGAGTGCTTCTAAGCCAAGTGTGGTGGGAGCTTGGTGGTGAAGCCTCACCATCCCTTGTGCCTTAAGCCATTACAACGTCTCCAGTCCAATATGCTTGGCAGTTAGAAGTGGCAAAGGATTTCATGGGACCCTCCCCAGCTGAAAAGGTCCCACTCTTGAGATAGACAGTCTTCAATACTGTTTGGCTGCACAAATGAGTCCACTTGCTTCATGGCCACAGAAGCCACTGGTTGGCAGACAGTGACAATTCAGCCAGGAGCTATCTGCTTGGCACCAGCCACCCCTCTGAAAGCTGTGTTCTCGTGGGTGTAG
Seq C2 exon
TTTGAAGGAGCCCGCAGCGCAGAAGAGATCCGGAAGTTCTGGCAGAGCTCTGAGCATCCAAGCATCAATAAGAAGGAGTGGAGCACAGAGGAAGTAGAGAGGCTAAAGACCATCGCTGCCTCACACGGCCACCTCGAGTGGCACTTGGTTGCAGAGGAACTCGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018845:ENSRNOT00000061682:8
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=0.055
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF139211=Myb_DNA-bind_6=PU(45.9=50.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGCTCCCAGAGGAAGCTTT
R:
CCCGAGTTCCTCTGCAACCAA
Band lengths:
238-585
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]