RnoINT0125461 @ rn6
Intron Retention
Gene
ENSRNOG00000009196 | Rc3h2
Description
ring finger and CCCH-type domains 2 [Source:RGD Symbol;Acc:1304833]
Coordinates
chr3:21629398-21629813:-
Coord C1 exon
chr3:21629729-21629813
Coord A exon
chr3:21629480-21629728
Coord C2 exon
chr3:21629398-21629479
Length
249 bp
Sequences
Splice sites
5' ss Seq
ACGGTAACT
5' ss Score
7.53
3' ss Seq
AAACCTCATTCTTTTTAAAGGGA
3' ss Score
6.84
Exon sequences
Seq C1 exon
ATTATGTCCCTTATGTTAATGCTGTCGATTCAAGGTGGAGTTCATATGGTAACGATGCCACATCATCAGCACACTATATTGAACG
Seq A exon
GTAACTGTACTCTCATTTCCTTAAGCTGCTTTACTCTCAAATTTACATGAACTATAAAATATAGAAGCCATTACTGGTTGTCCATGGATTAAGCCTTGCTTATTTGAGCTGTGTAAAAACTTTCTGAAACAAATTCCACATTTGGAATAGTGACTAAAATACATTCAGTGTTGATAGTTTCAAAGAACATTAATGCTTTGGTTGCTTTGTATCTCATTTTAACTACAGTAAACCTCATTCTTTTTAAAG
Seq C2 exon
GGACAGATTCATTGTTACCGATTTATCTGGTCATAGAAAGCACTCCAGTACCGGAGACCTCTTGAGCCTTGAGCTTCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009196:ENSRNOT00000012354:15
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=0.214
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:
ATGTCCCTTATGTTAATGCTGTCGA
R:
GCTCAAGGCTCAAGAGGTCTC
Band lengths:
156-405
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]