RnoINT0169474 @ rn6
Intron Retention
Gene
ENSRNOG00000005886 | Zscan20
Description
zinc finger and SCAN domain containing 20 [Source:RGD Symbol;Acc:1562996]
Coordinates
chr5:146768450-146768849:-
Coord C1 exon
chr5:146768773-146768849
Coord A exon
chr5:146768535-146768772
Coord C2 exon
chr5:146768450-146768534
Length
238 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
CCTCTGTGTCTGTGTCACAGGAA
3' ss Score
10.3
Exon sequences
Seq C1 exon
CTGTCTTCACACCCCAAGCCCCAAGTGTTCCAAAGATGGCGAGCGCTGGAGATTGGGAGATGGCAGCCAAGTCCCAG
Seq A exon
GTAAATGACTTCTTTATTTTTCATGTCATCCTCTTGCTGTGCCTGCCCCCCAACTCAAGCCTCTTCAGAGGGGTACAGAGCATAGAGTTAACCCTTGCCCCACTGGACCTGCTGCTACTCACTGACTGTGATGCTGTCCCCACACATGGCTGTAGCGATCTCTCTTAGGTCTGGTCAGGTTCTCGGGCTGTTTCTAAAGTGTCATTGATATTTAAGGTCCTCTGTGTCTGTGTCACAG
Seq C2 exon
GAAACCCTGAGCCCCAGTAGACAAGCCCAGGAGGAGCCCTGCCAGGACCCCGAAGGAGAGGATTGTGGGAACAGTGCATGCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005886:ENSRNOT00000008887:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTCTTCACACCCCAAGCC
R:
GCATGCACTGTTCCCACAATC
Band lengths:
158-396
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]