RnoINT0125462 @ rn6
Intron Retention
Gene
ENSRNOG00000009196 | Rc3h2
Description
ring finger and CCCH-type domains 2 [Source:RGD Symbol;Acc:1304833]
Coordinates
chr3:21629177-21629479:-
Coord C1 exon
chr3:21629398-21629479
Coord A exon
chr3:21629312-21629397
Coord C2 exon
chr3:21629177-21629311
Length
86 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
3' ss Seq
TTTTTTCTCTCTTCATGGAGGCC
3' ss Score
-3.61
Exon sequences
Seq C1 exon
GGACAGATTCATTGTTACCGATTTATCTGGTCATAGAAAGCACTCCAGTACCGGAGACCTCTTGAGCCTTGAGCTTCAGCAG
Seq A exon
GTAGGCTCTATCTACTTAGCTTTGATTTTTAAAAAGTAAAATAATTATTGAAAGCTAAGCCTATGTTTTTTTCTCTCTTCATGGAG
Seq C2 exon
GCCAAGAGTAACTCATTACTTCTTCAGAGGGAAGCTAATGCTCTGGCCATGCAACAAAAGTGGAATTCCCTGGATGAAGGCCGTCATCTTACTTTAAATCTCCTAAGCAAGGAAATTGAACTGAGAAATGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009196:ENSRNOT00000012354:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.214 A=NA C2=0.178
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTACCGGAGACCTCTTGAGC
R:
CCATTTCTCAGTTCAATTTCCTTGCT
Band lengths:
167-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]