DreINT0017699 @ danRer10
Intron Retention
Gene
ENSDARG00000075924 | RAPGEF4 (1 of 2)
Description
Rap guanine nucleotide exchange factor (GEF) 4 [Source:HGNC Symbol;Acc:HGNC:16626]
Coordinates
chr6:6745440-6746116:+
Coord C1 exon
chr6:6745440-6745500
Coord A exon
chr6:6745501-6746039
Coord C2 exon
chr6:6746040-6746116
Length
539 bp
Sequences
Splice sites
5' ss Seq
TCTGTGAGT
5' ss Score
7
3' ss Seq
GTTTGCTCTCTGAATTTCAGTGT
3' ss Score
8.26
Exon sequences
Seq C1 exon
GTGAAGAGAGAGCTCGCCGGTGTCCTCATCTTTGAGTCACACGCCAAAGCAGGCACTGTCT
Seq A exon
GTGAGTTTCAATGGCTCTTTAATGCTCTTTTACTTAGTTGATATAACGTTGTGAATATAATTATTATGTCAATAAGATGTTTTAATATTTAGGAAGAAAATAAATGCTCATCAAGGCTATATTAAGTTGATCCAAAAGCTCAAATCAGTTTTCATCCTGTCGCAATATCTGTTTTTTGTTGTACGATATATATTGCACCAAAATATATTGCGATAACCAATATTATTGTCATTTTAAGACTATTTTATGCCACTCGTTATACAATGCCAGAATGACAATATAATATCATCACAATGTAAGAAACACTCTTCCAAAGAACACTTAATATTTTATTGTTGAGATTATTTAATTGAATTTAATTCATTTTAACGATTTAATAATAAGGCTAAATAAAGCACATCCTAAATAAATAATAATAAATGTTATAAAAAAAAAGTGCAGGGTAAAAAGTAACAGAGGCTGCGATATCTGCTACCCAATCTATTTTCAATTGTCAGACACCCACATGTATGTCTGTATGTTTGCTCTCTGAATTTCAG
Seq C2 exon
TGTTTAATCAAGGGGAGGAAGGCACTTCTTGGTATATTATCCAGAAAGGATCAGTAAATGTTGTCATCTATGGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000075924:ENSDART00000166607:11
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=PU(22.5=42.9)
A:
NA
C2:
PF0002724=cNMP_binding=FE(62.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]