BtaINT0122397 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015539 | RAPGEF5
Description
Rap guanine nucleotide exchange factor (GEF) 5 [Source:HGNC Symbol;Acc:HGNC:16862]
Coordinates
chr4:31221517-31222267:-
Coord C1 exon
chr4:31222247-31222267
Coord A exon
chr4:31221568-31222246
Coord C2 exon
chr4:31221517-31221567
Length
679 bp
Sequences
Splice sites
5' ss Seq
CAGGGAAGG
5' ss Score
3.44
3' ss Seq
TTTTCTTTCCTTCCAAATAGACT
3' ss Score
10.47
Exon sequences
Seq C1 exon
TGGGGTTCAGGGCCATGTCAG
Seq A exon
GGAAGGTGAGGGCTTTCTGATGTGGAGAAGGGTATGAGCAGAGGCAGGTATGTGTTGTAGGTTCTTCTGATAAGTGGATTTTATGTTGAATCACAGAAGCCATGTGGGGAGGTAGAGGGAAAATACTAGAAATCTGGAGGCCAACTCTGGTGGGCCCAGAAGGGCAGGCAGGGGTTTTTCACTGACTCCTGTAAGCAAGGAGAGACCCACCCTCAGTTGAGGGGGCTACACAGGGACTTTTGTTCACCTGAGGTTTGCAGGATGGCCTGAGAGGGTATGATGGGAGCCTGGGGAAATCCATTGAGAGGCTGAAACAGCAGTCTAGGGGTGCACGGATGAGAGCTGGAATTAGACCGATGAAAGGGAAAACGGAAGGGAAAGGCGAAGTGGTATCAAAATCATGTTGAGAATAAAGCAACACAGACACAAACACCCGTTGTTCTGTTGCAGTTTTTAAAGCCATGGAAGCCATTCCGATAGCATATCCTGTCCCATTGGAGTGAATGTTGACCAGATATTTACCTTGAATGAGAATAAAGATGTTAATCCTCTGTGGCCATTGACGTTTTTTGGCTTGGACAATTCCTGGACTTCCCACGGTTGCATGTATTGTGTCTTAATGGTACAGTCGTACCACAAAACTGGTTCTAATTTTTCCCTTTTCTTTCCTTCCAAATAG
Seq C2 exon
ACTCTATCAAGAAGAATTTCCAATCCATACCTCGAACATACTCCATCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015539:ENSBTAT00000033832:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
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]