GgaINT0091857 @ galGal4
Intron Retention
Gene
ENSGALG00000010910 | RAPGEF5
Description
Rap guanine nucleotide exchange factor (GEF) 5 [Source:HGNC Symbol;Acc:HGNC:16862]
Coordinates
chr2:30790302-30792448:-
Coord C1 exon
chr2:30792301-30792448
Coord A exon
chr2:30790400-30792300
Coord C2 exon
chr2:30790302-30790399
Length
1901 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTG
5' ss Score
7.76
3' ss Seq
GTATTCATTTTATTTTGTAGACA
3' ss Score
8.7
Exon sequences
Seq C1 exon
TACCTATTGTGCAAAGAACCATCAAGGGAAAGAAGATGACTCTGATGTATCCTGCAGGAAACGAAAGGTCTTGCATTTGGTGTCTCAGTGGACTTCTCTCTACAAAGACTGGTTACATGAAGATGAGCATTTAAAACAATTTTTAAAG
Seq A exon
GTATTGAATCACTTCCTGATGCATTTCAATGTTGTTTCATTAGCATATATCATCTAAGAAGCTGCAACAGCAAAAATTATAAATCATCATTTTTCATATTTAAATTTAGTCCTTGAGATCTATAATATGAAGTGATTTACATCTGTCTTTCCTTAATGCCTTAGAGGTAGTCAGTTTGAATGTAAAATCTATAATGTCTATTTGTTCAACATTACTTTCAAATGCAAAACTTTTGAAATTACACATCACCTGGAAAATGGGAAAAAATAGGAAGGTAAGAAGTAAAATGATGAATATGTGGAGGTTCCTTTGATACGGTGATCTTGGTCTGCCAGAACAGAGCCTATATTCAGTGTCCACATGATCATGGCTGAAAAGCAAATTTTGTGATCTCTATCAGAGGTGCTACGAAGAGCACAGTGCTGTTGTAAGATGTTTATCAGGTCTATATCAGGAACAGTACAGCTTTTTGCATTTTTAATAAATAAGACTTTGTCCTTACTAGCAAGGATCTGCAGATCTTTGTGTATGAATTCCAAAGCATTTTATTATTGCTTGTAGATTTGCAAATAGCCATGCTGTCACTGGGCCTAGGTCTGTAAGATCCATACAATTGTTTTTTCTGTTCTTTAATTTTTTCTTCTTTTTTCTGCATGTGGAATGAAAGTATTTTGAGAGAATTTGAAGGATTGATCTTCCACGTTTCCTAAAGACTGGCTTCAGTCTTTCACTCAAAACAAAGGGTGAAATTTTGTACTAAATTAAGAGAAAGACTTGAGAGTCCTGTTTTGTTTTGTTTTTGGAGGAGGGCATACTACATATGAAAGCAGAGACCTTAGGATTTTTGCTCTTCGGTACTAGGCTGTATGATACTGTATTGGAAACTGGGCATCATTCCAGCCACCAGCCAGGTTATACTGTTGCATGTACCTTGATGCAGTGCCTGTCTTTCTCTCCATAAAGCTGTGTGGCTGTCCAGTGTTCAGACACCCGATATTTCTGCTTGAGGCTTTAGCGTGATACAAAACAGTTGTAACATAAGTGATGCTTGAAGTTATCTGTGCAAACAATATACAGGCTTATAATCCAGAATCATTTATGCTGAGATTCTTAAATGTAGGAGTATTAATTGGGCTAAAACAACTGGATGACTCAGCCTATGCATATGATGTCCATATTCTTGAAAGGAAAAGAGTAGCATTTGTGTGCAGATTCTGAAAAGGACTAGAAAAAATATTTCCCTCAATTTCAACCATCTAAGCCAATTCATTTGACTTACCTCTTACCTGAGGTGGTGTCTCCCAAAGTTAACTGAGGTTCCTAGTTGAGGGTAGTCAGAAGATGCCTTCTCCAGAAAGAAGTAGTAAGGGTTATTTATTTATTGGCTTAAAATTAAGAGTATGTTGTTGTTTGTTTTTGAGAGAGATTACTCAATTTAAATGTATGCATATATGAGGAAAATTGAAGTAGAAAGTTCATTTTAAAAGTCTAAATCAGATTAATCTGTTTTTACCATTTTGGATGAGGAATGATGGTCTGTTATGTTCTCAAGCTTCAGAATGGATTCTCCTGAATTAACTTAGATTTTGTGTAACAGCCATGTGTGCCATTTTATCTGTCCGTAGACTAATGAGTATCAACATTTTGCTCACTCACTTGGTGTTGATAGAGAGTGTTTCTACTTGGTGTTGATAGAGAGTGTTTCTTCTATGACAAACTGAGCACTGACTAGCCTGTAAAAATACACAAGGACATTCTCTGCTCATGGATCTTGCAAAAGAATTACGATGAAATTTGTTGCAGTATGCTAACGCCTGATTGATTTAGACTATTGCTGGGATACTTCCGATTTATTTTTTTGTTATCAGATGATTGCAGGAAGTATTCATTTTATTTTGTAG
Seq C2 exon
ACAATATACCGGAATGTGTTAGATGATGTGTATGAATATCCCATTCTTGAGAAGGAGCTGAAAGAATTTCAGAAGATACTTGGGATGCATCGTCGTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010910:ENSGALT00000017745:18
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(46.7=100)
A:
NA
C2:
PF0061815=RasGEF_N=PD(1.0=3.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TACCTATTGTGCAAAGAACCATCA
R:
TGACGACGATGCATCCCAAGT
Band lengths:
246-2147
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]