RnoINT0140854 @ rn6
Intron Retention
Gene
ENSRNOG00000018845 | Snapc4
Description
small nuclear RNA activating complex, polypeptide 4 [Source:RGD Symbol;Acc:1309048]
Coordinates
chr3:3814814-3815596:-
Coord C1 exon
chr3:3815517-3815596
Coord A exon
chr3:3815291-3815516
Coord C2 exon
chr3:3814814-3815290
Length
226 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGA
5' ss Score
6.65
3' ss Seq
TAGTCTATTCCTCCCCTCAGAAA
3' ss Score
6.84
Exon sequences
Seq C1 exon
GTCACTGGGCAAGAATAGCTTCTGAACTGCCCCATCGGTCAGGCTCCCAGTGTCTGAGCAAGTGGAAAATCTTGGCCAGG
Seq A exon
GTGAGACATTTGTTTGCTTTCTTTGTGCTTTGCTTGAGCCCAGCTAAGAGCCTGTCAAGAGTGCTTGGGCAAGATGAGATGTAGTGGTGGTTGGGAGGGAAGTGCAAAGGTTCTGCTCTCTGCATGTCCTTACTCGTGTTTCAGGGACCTCTCCATAGGGTGCTCTGTTTCTGTTATCTGTATGCCTGGGTATCTGAGACCTGAAGTAGTCTATTCCTCCCCTCAG
Seq C2 exon
AAAAAACAGCATCTCCAGAAGAGGCGAGGGCAGAGGTCCCGTCACAGTAGCCAGTGGAGTTCCTGTAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGTGGCAGTGAGGACTATGGCGGTGGCAGCAGCAGCAGCAGCAACAGCAGTGAAGACTCAGAGGTAGAACTGGAGGAGCCTTTGCAGAATAGCAGAGCATTGGCTCCTCAACAGTACAGCGTGCCAGACATCGACCTGTGGGTTCCTACCAGACTGATCGACAGCCGGTCACAGAGAGAGGAGACAGGGTGCTACCCAGTACACCCTGCTGTCTCCTGCCGTACTCAAAATCACCACAAGGAAGGTTCTACCGTAGTCTCTGCTCCTGAGAGAAACCAGATGCAGGAGTGCTGTGAGACCCACAGCACTGTTCCCAGAGGAGTCCAGTCCCTGCACTCCTCAGACACTCACGGAGCAAGTGTGAAGGAGCCAGCCTGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018845:ENSRNOT00000061682:14
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=0.887
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCCAGTGTCTGAGCAAGTG
R:
CGGCTGTCGATCAGTCTGGTA
Band lengths:
300-526
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]