GgaINT1023335 @ galGal4
Intron Retention
Gene
ENSGALG00000006348 | RAPGEF3
Description
Rap guanine nucleotide exchange factor (GEF) 3 [Source:HGNC Symbol;Acc:HGNC:16629]
Coordinates
chrLGE22C19W28_E50C23:435280-435626:+
Coord C1 exon
chrLGE22C19W28_E50C23:435280-435389
Coord A exon
chrLGE22C19W28_E50C23:435390-435537
Coord C2 exon
chrLGE22C19W28_E50C23:435538-435626
Length
148 bp
Sequences
Splice sites
5' ss Seq
CAGGTGACA
5' ss Score
5.49
3' ss Seq
GGGTCCTTGATGCACATCAGGTA
3' ss Score
2.54
Exon sequences
Seq C1 exon
GACGTGGAAGCCAACACCATGCGCCTGAAGGAGCACGGGAAGGTGGTGTTGGTGCTGCAGAAGAACCTGCAGGGAGGCAGCAGCCAGCCGGCCGCCACGCGGAGCAGCAG
Seq A exon
GTGACAGCACCAGCTGCCCGTCCCCATCCCTCCAGCTGCAGGCACACTGCTGGCCTTTCCCCGAGCCTTCTCTTGGGGAATGTGGGGAGAATCGTGGCGATGGGGATGCCAAAGCCGTCCTGAGCGCCGGGTCCTTGATGCACATCAG
Seq C2 exon
GTACCTGGTGATGGCCGGGACGCCAGAGAAGATCCTGGAGCACCTGCTGGAGTTCATGAGGCTCGATGCCACGCTCTACGACCCCGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006348:ENSGALT00000010260:10
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:
PF0002724=cNMP_binding=PD(2.3=5.4)
A:
NA
C2:
PF0061815=RasGEF_N=PU(25.5=90.3)
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:
GACGTGGAAGCCAACACCATG
R:
TCGTAGAGCGTGGCATCGAG
Band lengths:
191-339
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]