BtaINT0122343 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006828 | RAPGEF3
Description
Rap guanine nucleotide exchange factor (GEF) 3 [Source:HGNC Symbol;Acc:HGNC:16629]
Coordinates
chr5:32706961-32707430:+
Coord C1 exon
chr5:32706961-32707049
Coord A exon
chr5:32707050-32707351
Coord C2 exon
chr5:32707352-32707430
Length
302 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
CCCCTGTCCCTGCCTTGCAGAGA
3' ss Score
11.09
Exon sequences
Seq C1 exon
GTATACAGTGATGTCTGGCACCCCAGAGAAGATCCTAGAACTTCTGTTGGAGGCCATGCGGCCTGACTCCAGTGCTCATGACCCAACAG
Seq A exon
GTAGGGGCGGGAGACACGCTGCCTGCTTTCTGACTCAGAGGGTGGTCAGCACCACCTGGGAGAGAGCCAGGCACCTGCATCTGACCTCATCGGGTGCTCGATTGGCCTCTTTGGTCAGCTGGCCGGAAGTTTTCGTTCCTGTGTTCTTGGCTTGTGTAGGAAGTGCTGTGACAGGGACAGGGTGTCACTGCTCCCTGGCCCGTGGCGGGATTGGTAAAAGGGGTGTCCCGGTTGTGCATATACTTGGGCTCAGGAGACTCGACTGCTGAATCCCTCACCTGTCCCCTGTCCCTGCCTTGCAG
Seq C2 exon
AGACATTCCTCAGTGACTTCCTCCTGACCCACAGTGTCTTCATGCCCACTGCCCAGCTCTGTGCTGCCCTCCTGCACCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006828:ENSBTAT00000008976:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.194 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0061815=RasGEF_N=PU(25.5=90.3)
A:
NA
C2:
PF0061815=RasGEF_N=FE(23.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]