GgaINT0124547 @ galGal3
Intron Retention
Gene
ENSGALG00000003712 | RAPGEF1
Description
NA
Coordinates
chr17:6875108-6875504:-
Coord C1 exon
chr17:6875400-6875504
Coord A exon
chr17:6875294-6875399
Coord C2 exon
chr17:6875108-6875293
Length
106 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
CCGGCTCTGCCATCTTTCAGCTT
3' ss Score
8.76
Exon sequences
Seq C1 exon
TTTGCAACCAACATATGAGAAGTTTTGCCACTTCCCAGACACGTTTAAGAAGCGAGTCAGTAAGAACACCTTCTTCGTGCTGGTGAGAGTGGTGGATGAGCTGTG
Seq A exon
GTGAGTGGCCTTCATCGTTTTGGGGGTGGGAGGTGCACAGTCAGTAACAATACCAGCATCCTGGAGTCGCAGTCCTGATGCCTGCCCCGGCTCTGCCATCTTTCAG
Seq C2 exon
CTTAGTGGAGCTGACGGAGGAGATTCTCAAGCTGCTGATGGACCTGGTGTTCCGGCTGGTCTGCAATGGGGAGCTGAGCCTCGCCAGAGTGCTGCGCAAAAACATCCTGGACAAAGTGGATCAGAAGAAGATGTTGAGATACGCCAACTCCATCAAACCTCTCGCAGCCCGCGGGGTGGCAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003712:ENSGALT00000005891:18
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=0.000
Domain overlap (PFAM):
C1:
PF0061815=RasGEF_N=FE(35.0=100)
A:
NA
C2:
PF0061815=RasGEF_N=PD(16.0=25.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTTGCCACTTCCCAGACACG
R:
GAGGTTTGATGGAGTTGGCGT
Band lengths:
244-350
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]