RnoINT0125463 @ rn6
Intron Retention
Gene
ENSRNOG00000009196 | Rc3h2
Description
ring finger and CCCH-type domains 2 [Source:RGD Symbol;Acc:1304833]
Coordinates
chr3:21628754-21629311:-
Coord C1 exon
chr3:21629177-21629311
Coord A exon
chr3:21628862-21629176
Coord C2 exon
chr3:21628754-21628861
Length
315 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
AATATTTTCTTTATTTACAGAAT
3' ss Score
8.58
Exon sequences
Seq C1 exon
GCCAAGAGTAACTCATTACTTCTTCAGAGGGAAGCTAATGCTCTGGCCATGCAACAAAAGTGGAATTCCCTGGATGAAGGCCGTCATCTTACTTTAAATCTCCTAAGCAAGGAAATTGAACTGAGAAATGGAGAG
Seq A exon
GTAAGGAAACTGAACCTCCCAGCTTCATACTTAATGTCTTTGTTTTCTGCAGCTATGTATTGGAGTATACTATTTCTTGGATTTTTCTAATGAGTGATTGATTACTTAAAGAGTAGAGTAGAAATAAAAATATACTCTCAGCCCTGGGTTCGGTCCCCAGCTCCGGGGGGGGGGGGGGGGGGGATATATACACACACATATACATACATACACTCTCAGACTTCTGAACTAATTCTTTAGCCATATCATTATGCTTCTTATTTTAATTTAAAAGAGATTGTGCAGGTATAAAATTAATATTTTCTTTATTTACAG
Seq C2 exon
AATGATTACACAGAAGACACTGTAGATACCAAGCCTGATAGAGATATTGAGTTAGAACTTTCAGCCCTTGATACTGATGAGCCTGATGGCCAAAGTGAACAAATTGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009196:ENSRNOT00000012354:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.178 A=NA C2=0.958
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTAACTCATTACTTCTTCAGAGGGA
R:
TTGTTCACTTTGGCCATCAGG
Band lengths:
230-545
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]