BtaINT0122365 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006828 | RAPGEF3
Description
Rap guanine nucleotide exchange factor (GEF) 3 [Source:HGNC Symbol;Acc:HGNC:16629]
Coordinates
chr5:32705499-32705722:+
Coord C1 exon
chr5:32705499-32705559
Coord A exon
chr5:32705560-32705645
Coord C2 exon
chr5:32705646-32705722
Length
86 bp
Sequences
Splice sites
5' ss Seq
TGTGTAAGT
5' ss Score
7.65
3' ss Seq
ATTTGTGCTGCTTCTCTCAGTGT
3' ss Score
7.86
Exon sequences
Seq C1 exon
GTGAAGCGGGAACTGGCTGCAGTCCTGCTCTTTGAACCGCACAGCAAGGCAGGAACTGTGT
Seq A exon
GTAAGTCCTGCCTGGACGGGGGCGGAGGCCACAGGGAAGAAGCGATGGGTGCCTGGGGCATGTCTGATTTGTGCTGCTTCTCTCAG
Seq C2 exon
TGTTCAGCCAGGGGGACAAGGGCACCTCGTGGTACATTATCTGGAAGGGATCGGTCAACGTGGTGACCCATGGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006828:ENSBTAT00000008976:8
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(8.2=33.3)
A:
NA
C2:
PF0002724=cNMP_binding=FE(29.4=100)
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:
GTGAAGCGGGAACTGGCTG
R:
GTCACCACGTTGACCGATCC
Band lengths:
128-214
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]