RnoALTD0025025-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000059961 | Rapgef3
Description
Rap guanine nucleotide exchange factor 3 [Source:RGD Symbol;Acc:621869]
Coordinates
chr7:139253908-139254646:-
Coord C1 exon
chr7:139254546-139254646
Coord A exon
chr7:139254297-139254545
Coord C2 exon
chr7:139253908-139254120
Length
249 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGC
5' ss Score
7.96
3' ss Seq
CTTTCCTCCCCCCATCACAGGTC
3' ss Score
10.87
Exon sequences
Seq C1 exon
CTCCAGGATTCCCGGGTGGAGCTGCCCTGGGGCACTCCAGGGTTCCTGCAGCCTCTTGCTAGGGCAAGCACCGCGGTGTGAGCTGGAAAAGAAACATGAAG
Seq A exon
GTGAGTGAGGTGGGACGGGGTCAGGGCCAAGGAATCCTGCTGTAAAGGGCGGGAGAGGAAGCCGACACGTGGGGGAGTTTGGGTGGGAGAGAGTGGCGGGGAGGAGAATTTGAGGAAAAGCTACTTCTGTGGATCTAGTGTGTGTACAAAGGTGGACATGCCTTCAGGACATGGGCAGTGAGGTGGGGCCGAATTCCAGCCAGAACTGAGAAGGGCCTCATCTTTGTGAGTCAAGCTGGAGACCCCTAG
Seq C2 exon
GTCAGCTGGCCAGGTGAGAACCACTGGCAGGTGGGCCCAGCTGTGGTGGAGAGTCCAGCTGTGGGGGCACCGCAGGTGGGAGGTCTCCCGGACGTGGTTCCGGAGGGCACGCTGCTCAATATGGTGCTGAAGAGAATGCACCGTCCCCGGTGCTGCTCTTACCAGCTAGTGTTCGAGCACCGGCGCCCAAGCTGCATCCAGGGACTTCGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000059961-0-1,1-1-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.025
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGGATTCCCGGGTGGAG
R:
GAAGTCCCTGGATGCAGCTTG
Band lengths:
307-556
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]