RnoINT0124230 @ rn6
Intron Retention
Gene
ENSRNOG00000059961 | Rapgef3
Description
Rap guanine nucleotide exchange factor 3 [Source:RGD Symbol;Acc:621869]
Coordinates
chr7:139240623-139241152:-
Coord C1 exon
chr7:139241071-139241152
Coord A exon
chr7:139240770-139241070
Coord C2 exon
chr7:139240623-139240769
Length
301 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
CATCCCCTCCTCCTCTCCAGTCC
3' ss Score
9.17
Exon sequences
Seq C1 exon
GCCCGGAATGCACCTGTTTGGTTTCCTAACCATGAGGAACCCCTCCCAAGCAGCGCTGGGGCCATCCGAGTCGGGGACAAAG
Seq A exon
GTGGGTGGGATAAATAAGCAAGCTGGGCGTAGACTGTGTCAGCATTGCCATCTCTGTCTCCCCTGCCTGGCTGGTGTCGCTCTGGGCTAGGGGAGGACATGTCCCCACAGCCTTTACTGTAGCTGCCAAGCGGGTCAGCCACCTGTGCTCCTTCCCTAGGACTCCCCACTGGGCTTTGGCACCAACCTACTTTGCTTCTCCTTGTATCCCCCTTTCCTGCCCTATGGTTGTCCTTTGGCTGCTCCTCCTAGGGAGGGGAGACCAGGCACCTGCTTCCAGCTCATCCCCTCCTCCTCTCCAG
Seq C2 exon
TCCCCTATGATATCTGCAGACCCGACCACTCGGTGCTGACCCTGCACCTGCCGGTGACAGCCTCCGTGAGGGAAGTGATGGCAGCTTTGGCCCATGAGGACCACTGGACCAAGGGGCAGGTGCTGGTAAAGGTCAATTCTGCCGGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000059961:ENSRNOT00000078644:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.524 A=NA C2=0.000
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:
CCCGGAATGCACCTGTTTGG
R:
ACCGGCAGAATTGACCTTTACC
Band lengths:
227-528
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]