BtaINT0122403 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015539 | RAPGEF5
Description
Rap guanine nucleotide exchange factor (GEF) 5 [Source:HGNC Symbol;Acc:HGNC:16862]
Coordinates
chr4:31048978-31051551:-
Coord C1 exon
chr4:31051473-31051551
Coord A exon
chr4:31049128-31051472
Coord C2 exon
chr4:31048978-31049127
Length
2345 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
AATTCTTTCACCTCATGTAGTTT
3' ss Score
4.79
Exon sequences
Seq C1 exon
AATAAAGCCCTTTTCCACCAATTCAGTCTGAAGGAGAACTGGCTGCAGCACAGAGGAACTGTGACAGAAAGTGAGGAAA
Seq A exon
GTGAGTATGATTTGAACAAGGGTTGGGGCAGGTGGAGGAGTTTAACACAACAACGCAACTTTAATACCTCCGCCTGCCGGTAGCTGTTTGCAGCTGCCACACCCCCACCACGACAAGCACGTTAACATCCACCATGAAAGTTTTTCTTTTCTTGCCGTGCTATAGTTTTCTTCATCACTGAGTACTGTCCCCGGAGCCAGGTCATCTTTACTTTGGGAAGTAAGGGAAGGAGACCACGCAGAGTCCACTGCGTTCTTGGGGAGCAGTGCAGAGGACTGGAAAGGCACCCTTAGCTGCCTTCTCCCCTGTGTCGGTCCATTGCCCGTGACTCACGGGAAAGTCCACTGAAAGCACTGTTCAGGGCTTGGACTGAGTCAGTCCTGGAGATTTAGAGGAGAAAATCTTGGCGGGAATAATGAAAGGAAGGATGTGCGATAGAAACCCCTCCTAGGCAAGGCCATGCAGGCAGCGCCACACATGCAGGGCGTCCTCAGTCAGTGTTCGTGCCAAAAGGGCTCGTGACATCCCACCCCCCGCCCCCGCCATCCGCAGAGGGCCCCTAGGTCAGGGCAGGGGAAGCACCTTTGCAGCACACTGGCAGTGCTGACGTGCTTCTCTGCTTCACTGTTTTATAGCAGAACAGGAAGTGGCTTCCTCCCGTTAGGGTAAAAGGTGAGTCAAGTGCAGAGCTGGGAAACAGCCATTCAGATGTTCATGCTCTTATGACTGGAGACTTTAAAACTCGCCTGCCCCAACAGTGCCAAAATTCTAAGTATAGACACTGGATATTTGCTCAACTTCTTGAACGCTTGAGCACCCAGATGTCGCAGATTCCTCTTCCGTTCCATCCTTTGTGTATAATGAGCTGCTCATGAGGGCGCTTGGTGGGCCACATCATCTGCACCAAGTGGAGGAGCAGAAAACCTCACCTCCCCCTCTCTCAGCTGCTAACCTTCCTTTCCCATCTGTCTTACAATTAGCTGTTTAATTTTCCATGCCGAGTTTCAAAGGGTCATTTCAAGATGCCTCAGACTGTTTTTGTTCATCATTTTACTAAGCGCAATGTAAACTTTCCTCACATTTAGCATTTTGTAGACTGCATCTTTGCCTTGCTCCAAAACTCCATCTTTCTATGGAAGGAAAAAAGCCTTTTCCTCTCTCACAAGTCTGTTGACAACACATAAAACAGCTGTTTGTTGGATGCTAGAGTTTTAATGACACACCCTACCAAACCTAAAACAAAATACTGTCAGTGCCTCTGTCAAAGTGTCTTTACTTTGAGGTTTATACTGGTAAACCCATAGTTTGTCTTTTGCTTCATTTGCATTTCTGTGAAAACATTCCTGGGTTTATTTTTGTGGTGCCATTTAAATTGCATATTAAACTTTTCTAGGAGCTACATTCTACTTCTTTTCTTCAATCTAGAAAAGAAGAATACTTAAGCATATTATTGTCCTGTCTTTTCTAAAGAAGCTAGTGTTTTATACATTCACAATGGCTCATATAAAAGGCAAATAACATGTCAGTTATTTCCATCGCTATTAAGGCAGCTTCTGCTGTCAAATCATAAAGGAGTATTTTTCCTGGGCCTGTTCACCATGGTAGTGATAATGCCCTTGTAATAATGAGTAGTACCACAGACAAGAAAAAGGAAATTAAAAAGGCTGGAAATGTGACCTCCGTTTGAAAATTAAGCTCACTACCACCTTGACACAGGCAGGGGGCGGAGATTCTTTCTTGAAAGATCAAGAAGGCTTGAAGCCAAAACCATAGCAAGCGACAGATTTTTTAGGTAAAGCTTCAGTTCAGTTCAGTTGCTCAGTCGTGTCCCATCTGCAGCCCCATGGACTGCAGCACGCCAGCTTATGCGAATTCAAATAACAAAGCGTGGTGGTCTTTACTGAGCCACTGGGGCTGTTGGGAGGAGAAGTGTAAAGTGAAAATGTGTGAGTTAGACATTTTTGTAGGCTGCTTTGGGAGATCTCGGTAACCCTCACGGAAGGGTCTGTGAAGTCCAGTCCGTGTTGCACAGACTGCGCTGTGTTGTGGGTAGGCTGCCTCCTACCAGGAGCACCCAACGAGCTTTGGCACGACGTGGGTCTCTCATTAGGCTCTGGGACACCCAAGGACTACTGCAGCTTGCCCACCTGCTTTATAATGTCTCCATCTCATGTGTGTGTAAGCACGTGGCTCCGTTCTCATGCCCTCGGGCGCCCACGTGCACGTGTAAATCTAGCTGTGTCTGTCCTGTACTGAAGAGCATAGTGTGGGTGCCTTGATTTGGAAACGTCTGTACCTTGTGGCCACAGTTCTCTGTTTACTCACAATTCTTTCACCTCATGTAG
Seq C2 exon
TTTTCTGCCACGTGTACATAACGGAGCACTCATACGTCAGCGTGAAGGCCACTGTTTCCAGTACAGCCCAAGAGATCCTGAGGGTTGTGGCAGAAAAGATCCAACATGCGGAAGATGATCTGGCTCTGGTAGCCGTCACCTTCTCTGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015539:ENSBTAT00000033832:17
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:
PF0078818=RA=PU(2.4=7.4)
A:
NA
C2:
PF0078818=RA=FE(61.0=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]