GgaINT0124551 @ galGal3
Intron Retention
Gene
ENSGALG00000003712 | RAPGEF1
Description
NA
Coordinates
chr17:6873794-6874111:-
Coord C1 exon
chr17:6874033-6874111
Coord A exon
chr17:6873896-6874032
Coord C2 exon
chr17:6873794-6873895
Length
137 bp
Sequences
Splice sites
5' ss Seq
AAGGTATCA
5' ss Score
7.22
3' ss Seq
TGTATTTTCCCACTTCACAGCAC
3' ss Score
7.46
Exon sequences
Seq C1 exon
GGTCCGTTCCATAATAATGCTTCAAGAGAAAGCCCAAGACCGAGAGAGGCTGCTGCTTAAGTTCATAAAGATTATGAAG
Seq A exon
GTATCAGCTCAGTTCTTGCTGTGAATCACCCGTGCTGTTCCTTAGCAGCAGAGTGGGACGTGCCAGGTGGTAGAGCTGTTTTATGTTCTAAGGCATTACAGACCTCTGTGTAACTGGTGTATTTTCCCACTTCACAG
Seq C2 exon
CACTTACGAAAGCTGAATAATTTTAATTCCTATCTGGCCATTCTTTCTGCACTGGATTCTGCACCCATCCGAAGGCTGGAGTGGCAGAAACAAACCTCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003712:ENSGALT00000005891:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=FE(14.6=100)
A:
NA
C2:
PF0061714=RasGEF=FE(18.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTCCGTTCCATAATAATGCTTCA
R:
TGAGGTTTGTTTCTGCCACTCC
Band lengths:
178-315
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]