GgaINT1023343 @ galGal4
Intron Retention
Gene
ENSGALG00000006348 | RAPGEF3
Description
Rap guanine nucleotide exchange factor (GEF) 3 [Source:HGNC Symbol;Acc:HGNC:16629]
Coordinates
chrLGE22C19W28_E50C23:437351-438116:+
Coord C1 exon
chrLGE22C19W28_E50C23:437351-437448
Coord A exon
chrLGE22C19W28_E50C23:437449-437990
Coord C2 exon
chrLGE22C19W28_E50C23:437991-438116
Length
542 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGC
5' ss Score
7.43
3' ss Seq
CACCCCCAATCTGTGTGCAGACC
3' ss Score
8.22
Exon sequences
Seq C1 exon
ATAAAGTGGGGCTGCAGCTGGACGCCGTGGGGGTGTTCACCTCGCTGGGCCTCAACGAGCGGCTCTTTGCTGTCAGCGTGGAGGAGCTGGGAGGTTTG
Seq A exon
GTGAGCTGGGAGAGGGTCTGCATGGGGTGGGAGGTGCCGGGGGGGAATCCTCGCCTTGTGGTTCTGGAGCTGGGCTGGGCTTCATTTTGCCCCATGGAGCACAGCTGCTGGCGCTGCTCCTGGTCCTTCAGCTCCAGGGGGGTCCAGGAGGAAATGGGGGCATCTGTGAGCTGAGATAGAGGGGATGGGTGGGAGTTCAATGGGCTGAGCAGGAGGGAATAGAGGGAGACCCGTGAGCCAGAAGGGAGAGGGTTTGATGAGTGAGGGAAGGGGATCAGAGAGCCACGATGGAGAGGATGAAGGGGATTTTGGCAAGCTGGGCGGTAGGGGGGCATGAATCCCGCTGGAGGTGATTTCAATGTGCTGAGCAATAAGGGGAGCCATGAAACACCATGGAGAGGATGGAGGGGATTTCAATGGACTGGCCAGCAGGGGGGGACCCGTGAGCCAAGTGGAGGTGATGGAGGGCCTCGGTGAGCCCAGCCACAGGCTGTGATCCTGGCTGTGGGTTGGGGTGTCCCTCACCCCCAATCTGTGTGCAG
Seq C2 exon
ACCCCCCACCCTGAGCAGCTGGGCCCCCACGTTGGCTCCTCGGACACGTTGGATCTCATCAGCTCCAAGGACCTGGCCAGCCACCTCACCGACCACGACTGGAACCTCTTCAAGAGCATCCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006348:ENSGALT00000010260:18
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=0.119
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0061714=RasGEF=PU(12.9=57.1)
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:
ATAAAGTGGGGCTGCAGCTG
R:
TGGTGGATGCTCTTGAAGAGG
Band lengths:
223-765
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]