RnoINT0168393 @ rn6
Intron Retention
Gene
ENSRNOG00000021800 | Zfp541
Description
zinc finger protein 541 [Source:RGD Symbol;Acc:1310756]
Coordinates
chr1:77986101-77986647:+
Coord C1 exon
chr1:77986101-77986243
Coord A exon
chr1:77986244-77986543
Coord C2 exon
chr1:77986544-77986647
Length
300 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGCT
5' ss Score
5.82
3' ss Seq
TGGCTTTGCTGGGACCACAGTGA
3' ss Score
0.25
Exon sequences
Seq C1 exon
ACATATCAACGTAGGAAGCAGATTTCAGGCGGAGATCCCAGAACTGCAAGAGAGGCCGCTGACCAGAGTAGATGAGAATGTAGCTTCTCTGGTCTGGAAGCCATGGGGAGATGTGATGACCAATCCAGAGACCCAGGACAGAG
Seq A exon
GTAGCTGAGGCTTTGATCAGATCCCAAGGCTCTTCCTTTCCCATCTAACTCCAGAAAATAGACCCTCGACCCAGCATCTCTCCCTCATTGCATTGCCCCCCCCCTCACTTGCCAGTGCAGGTGCCAGGCCAGGGTCTCTATGGTTCCTCTTTGTTCCCCTTACTCAGCCTGCCCCTGCCTTGGGATTGTAAGGAAAGGGAAATTGACCAGGATTCCCTGTACTATGGGGAAGACTACCTCCCTCACAGGCCTGACTTCATTTCTTTTCCCCAATGCTCTTTGGCTTTGCTGGGACCACAG
Seq C2 exon
TGATGGAACTCTGCAATGTAGCATGCTCCAGTGTGATGCCAGGAGGGGGCACCAACCTGGAGCTTGCCCTGCACTGCCTGCATGACGCCCAGGGCAGTGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021800:ENSRNOT00000058241:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.082 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0144819=ELM2=PU(79.3=93.9)
A:
NA
C2:
PF0144819=ELM2=PD(19.0=31.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATATCAACGTAGGAAGCAGAT
R:
CAGGCAGTGCAGGGCAAG
Band lengths:
223-523
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]