RnoINT0124246 @ rn6
Intron Retention
Gene
ENSRNOG00000059961 | Rapgef3
Description
Rap guanine nucleotide exchange factor 3 [Source:RGD Symbol;Acc:621869]
Coordinates
chr7:139245891-139246114:-
Coord C1 exon
chr7:139246054-139246114
Coord A exon
chr7:139245968-139246053
Coord C2 exon
chr7:139245891-139245967
Length
86 bp
Sequences
Splice sites
5' ss Seq
TGTGTAAGT
5' ss Score
7.65
3' ss Seq
CTGATTGGTGCTTCTGTCAGTGT
3' ss Score
4.94
Exon sequences
Seq C1 exon
GTGAAACGGGAACTAGCTGCTGTTCTGCTCTTTGAACCACACAGCAAGGCAGGAACTGTGT
Seq A exon
GTAAGTCGGGTTGGCCACCATGTCTGGAGCCGAGGGGGCAACGGTGGGTGGTAGGAGGGGACAAATCTGATTGGTGCTTCTGTCAG
Seq C2 exon
TGTTCAGCCAGGGGGACAAGGGTACCTCATGGTACATTATCTGGAAGGGATCTGTCAATGTGGTGACCCATGGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000059961:ENSRNOT00000078644:7
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=0.000
Domain overlap (PFAM):
C1:
PF0002724=cNMP_binding=PU(8.2=33.3)
A:
NA
C2:
PF0002724=cNMP_binding=FE(29.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAACGGGAACTAGCTGCTGT
R:
GGTCACCACATTGACAGATCCC
Band lengths:
127-213
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]