RnoINT0125459 @ rn6
Intron Retention
Gene
ENSRNOG00000009196 | Rc3h2
Description
ring finger and CCCH-type domains 2 [Source:RGD Symbol;Acc:1304833]
Coordinates
chr3:21630175-21630876:-
Coord C1 exon
chr3:21630730-21630876
Coord A exon
chr3:21630389-21630729
Coord C2 exon
chr3:21630175-21630388
Length
341 bp
Sequences
Splice sites
5' ss Seq
ATGGTATGA
5' ss Score
6.56
3' ss Seq
GTATTTTTTGGTCTGTGTAGGAC
3' ss Score
8.33
Exon sequences
Seq C1 exon
TTCTCTGAGAGTGGGAGTGGCACAAAATTTGAGGAAGACCATCTTTCCCATTATTCTCCTTGGTCTTGTGGCACTATAGGCTCTTGTATAAATGCCATTGATTCAGAGCCCAAAGATGTAATTGCCAATTCAAATGCTGTGCTGATG
Seq A exon
GTATGATTTGCTTGATTGGGAAAAAGGGTTGGGGGTGGGGGTTTGGAAGTAGGGATAATAATGTTGGTATCTGAAGTTTTAAAATGTATACTTTAGTCTTTTCTGGCTGTATAACTTATCTATAAGTAGCAGGGTAATATTTCAACAAAACTAATTTTATGTAATGTTTCAATTATTTAACTATAGTTTGGTAGTTTAATATAGTTGTTAAATACCATTGAATTCTAAAGTTAGTATAAAATTGACCAGAAAAGCCTAATTATGTGTTTAGAGAACATACTTTATCAATAGCTATAGCAATTGCCAGCAGCTCTTTCATGGGTATTTTTTGGTCTGTGTAG
Seq C2 exon
GACCTGGACAGTGGTGATGTAAAGAGAAGAGTGCATTTATTTGAAGCTCAGAGAAGGACAAAAGAAGAAGACCCAATTATTCCCTTTAGTGACGGACCCATTATCTCAAAATGGGGTGCAATTTCCCGATCCTCCCGAACAGGTTACCATACAACAGATCCCGTCCAGGCAACTGCTTCCCAAGGAAGTGCAACTAAGCCCATCAGTGTATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009196:ENSRNOT00000012354:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.184 A=NA C2=0.375
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCTCTGAGAGTGGGAGTGGC
R:
ACACTGATGGGCTTAGTTGCA
Band lengths:
356-697
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]