RnoINT0124225 @ rn6
Intron Retention
Gene
ENSRNOG00000059961 | Rapgef3
Description
Rap guanine nucleotide exchange factor 3 [Source:RGD Symbol;Acc:621869]
Coordinates
chr7:139244402-139244824:-
Coord C1 exon
chr7:139244736-139244824
Coord A exon
chr7:139244481-139244735
Coord C2 exon
chr7:139244402-139244480
Length
255 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGCT
5' ss Score
6.52
3' ss Seq
ACCCTAACCCTGCCCAACAGAGA
3' ss Score
5.62
Exon sequences
Seq C1 exon
ATATACGGTAATGTCTGGCACCCCAGAGAAAATCCTAGAACTCCTGTTGGAGGCTATGAGACCGGATTCCAGTGCTCATGACCCAACAG
Seq A exon
GTAGCTTCAGAAGACACTCTCCCTGTCCTCTGAGTCATCAGGAGGTCACTGCAGCCTGACCTCAGCAGGCTCTAGATTGGTCCACACGGGCAGTTGGCAGGAAGTACGCTTCGCTTGGGTGGAGAGAACCGTCATAGGGTTTGGGCACTGTTTCCCTTGCTTGTGCTGACTTAGGGGACGTATATTCCTGCCGCGAGTATAGGTGTGCTATGACTTGGGCTGAAATCCCTTCCCAACCCTAACCCTGCCCAACAG
Seq C2 exon
AGACATTCCTCAGTGACTTCCTGCTGACGCACAGTGTCTTCATGCCCTGCACACAGCTCTTTGCCGCCCTCCTGCACCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000059961:ENSRNOT00000078644:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.161 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0061815=RasGEF_N=PU(24.8=90.3)
A:
NA
C2:
PF0061815=RasGEF_N=FE(23.0=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:
ATATACGGTAATGTCTGGCACCC
R:
GCAGGAGGGCGGCAAAGA
Band lengths:
164-419
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]