GgaINT1023352 @ galGal4
Intron Retention
Gene
ENSGALG00000006348 | RAPGEF3
Description
Rap guanine nucleotide exchange factor (GEF) 3 [Source:HGNC Symbol;Acc:HGNC:16629]
Coordinates
chrLGE22C19W28_E50C23:439984-441023:+
Coord C1 exon
chrLGE22C19W28_E50C23:439984-440055
Coord A exon
chrLGE22C19W28_E50C23:440056-440705
Coord C2 exon
chrLGE22C19W28_E50C23:440706-441023
Length
650 bp
Sequences
Splice sites
5' ss Seq
CATGTAGGT
5' ss Score
4.94
3' ss Seq
GCCCATCCCTCACCCTGCAGGCT
3' ss Score
9.95
Exon sequences
Seq C1 exon
CTCCGCTGTCCCCGCTGCGGAATCGCTCCCCACACCGACCAGAGGATGCCAGGGCCATCAGGATCAGCACAT
Seq A exon
GTAGGTGTGGGGCTGGGTGACCCCAGGCTCTTAATGGGGTCTGCTCATTAAGTGCATTAAGGGGGTCCACTGGTGTGCCTGTTGTTCTTTAATGGTGGAGGGCTGTGAATGCTGGGATGGTGCTGTTGGTTCCTTGGCGTTTCCAGCTGGGCATCATTTTGCCCCATGGAGCAGAGCTGTTCCCATTTTCTTCTGCTCCTTTAGTGCTAAAGGGGGGAGGGGGTGGGGGGGTCCTGGATCTGAAACCAAAGAGGTGCTGGGGGGATTTCAGTGAGGTGAGCGGGGGGGGAATAGAGGGGATCCATGAGCCACGTGAAGAGGGTTCAGTGGGCTGAGCTAAGGGTGATGGAGGGGGATCGGAGAGCCACAGTGGAGAGGATGGAGGGGATTTCAGTGAGCTGAGAAAGAGGGGGGGACTGAAGAACCCACCTGGAGGTGATGGAGGGGGTTCCAATGAGCTGGGGAAGAGGGGGGACCCATGAACCAAGTGGGGGTGATGAAGGGGATTGCAGTGAGGCGAGCAGTTTAGGAGGACCCACAGACCCAGTTGGGGGGAGGAGGAGGAGCTGTAGGTCAGACTGCAGGCAGAGATGGAGATGTGAGCATTGAGGAGGGGGGGGTCCTCACTGAGCCCATCCCTCACCCTGCAG
Seq C2 exon
GCTCGGAGCAGTCGCTGAGCGTGCGGAGCCCCGTCTCCACCTGGGCATATCTGCAGCACCTGAGAGCCATCGACAGCCAGAAGGAGCTGCTGCGGCTCTCCCGTGATCTGGAGTCCTGATGGGCAGCAGGGAAAGGGAGCGAGGACGCAGCGGGGCCGTGGCACTGCGTGTGCTGATGGCACAGCAGCCCCGTGGCTCTGCTATGGGAGCCGGACTCGGCCGTGCAGTCGGGAGCCCACGGGGGCTGTGGGAAGGTGAGGCCACAGACAGCAGGGTCTGCAGCCCCCACGCAGTGAGCAATAGAGGTATTTTTGTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006348:ENSGALT00000010260:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.640 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CCCACACCGACCAGAGGAT
R:
CTCTATTGCTCACTGCGTGGG
Band lengths:
349-999
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]