GgaINT1023341 @ galGal4
Intron Retention
Gene
ENSGALG00000006348 | RAPGEF3
Description
Rap guanine nucleotide exchange factor (GEF) 3 [Source:HGNC Symbol;Acc:HGNC:16629]
Coordinates
chrLGE22C19W28_E50C23:436967-437273:+
Coord C1 exon
chrLGE22C19W28_E50C23:436967-437048
Coord A exon
chrLGE22C19W28_E50C23:437049-437126
Coord C2 exon
chrLGE22C19W28_E50C23:437127-437273
Length
78 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGG
5' ss Score
10.26
3' ss Seq
TGACACCTCCACCCTGACAGTGC
3' ss Score
5.64
Exon sequences
Seq C1 exon
TCTCGGAGCTCCATGAGCTGGCTCTCCAGCCAAGACGAGGCAGCTTTGAGCAGCAGCTGTGCCTTAAGAGCCCACGATAAAG
Seq A exon
GTACGGGGACTGCAGGCGCACCCACGGCACCCGAACCCAATGGACGTGGCCACAGTGCTGACACCTCCACCCTGACAG
Seq C2 exon
TGCCCTACGAGGTCTACAGAGCCGACCATTCGTGCCTGGTGACGGTGCTGCCCGTCAACGCGTCGGTGAGGGATGTGCTGCAGTCCCTCACCCCACAGCTGGGCTGGGATGGAGAGCACCTCCTGGTGAAGGTGAATTCAGCCGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006348:ENSGALT00000010260:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.250 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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGCCTTAAGAGCCCACGAT
R:
CGGCTGAATTCACCTTCACCA
Band lengths:
169-247
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]