BtaINT0122355 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006828 | RAPGEF3
Description
Rap guanine nucleotide exchange factor (GEF) 3 [Source:HGNC Symbol;Acc:HGNC:16629]
Coordinates
chr5:32715146-32716173:+
Coord C1 exon
chr5:32715146-32715196
Coord A exon
chr5:32715197-32716085
Coord C2 exon
chr5:32716086-32716173
Length
889 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TGTGGCTTCTTCCCTCTCAGGAC
3' ss Score
10.82
Exon sequences
Seq C1 exon
CGGCTGCCCCACAAAGTCCGGAAGCTCTACTCGGCCCTCGAGAGGCTGCTG
Seq A exon
GTGAGTGCTCTCTGCCCCCGCCACCCTGGCCCAAGCCCCTGCTTCTTCCCCTCCACACCTGTGCCTGTCCTTTGTCACTTTCCGGGTTTCTAACCCTGGGTCAGGGCCTGGTTCCCTTTGGCCTGTGAGTCTGGGGGGCTGGCTGAGAAATGCAGTGTTAGCACTATGGGGGTCTGTGTAGTGTATTATATGCCTCAGCAGGTGTATAGGGGCCCGTGTGGCATTTGCTGCGGCATTTGCTGGCCCTGGGGTCTGAGGTGCCAGGGGACCACCAGGGGGCCGCTGACCTGCCTCAGGACTCAGGAAGCGGGTCTTGACCCAATTCCCATGGTGTTCTGGGGTCTGTCAGAGGCCCCTCAGGAGACTCAAGGAGGCTACGCCAAAAAACGAGGCAAGAGTTGAGGAGCTGAGCCCTCCACTCCTGGGAATTGTAGCGGGGGTAGTGAAAGGTGTATAGTTTTCAGGAGGGAGCTCATGCAGGCTGCTTTCATTAGCAAGGCTCCAAGAGCTCCTGAGGAAAAAATTCTTCTCCTGGGGCTGAAGAAGTTCAAAGGGGTGTACCCACTAGAGAGAGAGGGAGAGAGGGAGAAACAGGGACAGAAAAGAGTTTTCCATGAATCCTCAGAGCCCCTGAGACAATGTCCATGAGCGTCCTGGGGCCTAATTGGAGGCCAGGAAACCATGTCATGCAGCCCGGCATCACAGCTCCAGGCCCCTCTGCCTGCCGCACAGCCTGCCTTGGGGAGATCTGGGGCCGAGAGGAGGCTGAGCTCCAAGGACTGTGCGCACGGCTTCTCCTTGGCGGGTGGGCATTTGGTTATGCTGTGGCACGTGGTAGGTCATGGTGTGCGGGACCCTCCCTCTCTCACTGTGGCTTCTTCCCTCTCAG
Seq C2 exon
GACCCCTCATGGAACCACCGAGTGTACCGTCTGGCCCTCACCAAGCTCTCCCCTCCCCTCATCCCCTTCATGCCCCTTCTTCTCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006828:ENSBTAT00000008976:23
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:
PF0061714=RasGEF=FE(8.6=100)
A:
NA
C2:
PF0061714=RasGEF=FE(15.6=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:
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]