RnoINT0124232 @ rn6
Intron Retention
Gene
ENSRNOG00000059961 | Rapgef3
Description
Rap guanine nucleotide exchange factor 3 [Source:RGD Symbol;Acc:621869]
Coordinates
chr7:139237308-139237923:-
Coord C1 exon
chr7:139237826-139237923
Coord A exon
chr7:139237434-139237825
Coord C2 exon
chr7:139237308-139237433
Length
392 bp
Sequences
Splice sites
5' ss Seq
CTGGTAGGG
5' ss Score
6.35
3' ss Seq
TGAGCATTCTTCTCTTGCAGACC
3' ss Score
10.37
Exon sequences
Seq C1 exon
ATGTCGTTGGCTTGCAGCCAGATGCCCGCGGTGTGGCCACATCCCTGGGGCTCAATGAGCGGATCTTTGTTGTCGACCCACAGGAAGTGCACGAGCTG
Seq A exon
GTAGGGACGGGCAGGCTGCCAGAGCCTGAGAAGCTCTGGGACCAGGAGGCAGGGTGGGTTCCGGGGGATGGCCACAGAGGCCAGAGGGAGGCGTTTGGCTCTGGCTGCTCCACAGGGAAAAGGGAGGGATGGCCACAGCACTTGGAGATGGCTAAGGGGAAAGAGGGGCTAGCTCTAGACTCTGACTCCAGAGGCTCAAGCCAGAGTTCCAGCATGCTAGGCCTGCTGTTAGCTGTCAGAACAGCGACCCCTCAGGAGAGCCTGTTTTTCACCATTCGTGGACCCGAGAAGCCTCTCTACTTCTCGATGCCCCGTCTGTCTGTTGTCCCTCTCACCGCAGGCAGAGTCTTTGTCCCAGGTCCTCCCTGTGTCTGAGCATTCTTCTCTTGCAG
Seq C2 exon
ACCCCACACCCTGAGCAGCTGGGGCCCACTCTGGGTTCTTCTGAGATGCTGGACCTAGTGAGTGCCAAGGACCTGGCAGGCCAGCTCACAGAGCATGACTGGAACCTCTTCAACAGGATCCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000059961:ENSRNOT00000078644:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.081 A=NA C2=0.190
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0061714=RasGEF=PU(12.9=57.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGTCGTTGGCTTGCAGC
R:
TGGTGGATCCTGTTGAAGAGGT
Band lengths:
223-615
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]