BtaINT0122411 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015539 | RAPGEF5
Description
Rap guanine nucleotide exchange factor (GEF) 5 [Source:HGNC Symbol;Acc:HGNC:16862]
Coordinates
chr4:31025739-31030966:-
Coord C1 exon
chr4:31030879-31030966
Coord A exon
chr4:31025804-31030878
Coord C2 exon
chr4:31025739-31025803
Length
5075 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACA
5' ss Score
8.92
3' ss Seq
TTCTTGTTTTTAATTTTCAGATG
3' ss Score
11.02
Exon sequences
Seq C1 exon
GATCCATCCCTGAATCACAAAGCCTACCGAGACGCATTCAAGAAAATGAAGCCACCCAAAATCCCCTTCATGCCGTTATTGCTTAAAG
Seq A exon
GTAACAATTATCTGTCTTTTATGCTATGTAATTCCATCTTCCAGAAATTTATCACTCTGACTACGGAGGGCGAGGAAAGGAATCTCAGTTTCTTTATTTTTGTCATTCCAACCTAACTGTTGGCTTGTGACTGTTTTTCACATGTTTGCTTCTTTCTGAGACACCTGAAATGCTTAATTGTTCTTAAGCAGACATCAAAGTATTTTCACTTGACTCACAAAACTTGGCACTGGAACTGTTTGTGTTTTTGCTTTATTCTGCTGCTAAGCCTTGTCTTATTTGAGTCTACAGTCCACTTAACTCAGCCAAGAATAAGGCTGGCATGAAGAATCCAAGTGGTGATCAGTTATGTTCTTTGTTTGCAACCTAAATTTCAGAGATTCAGCCCATGGCCTGCTGCTGTGTGAGAAAAACCTTCAGTCAACACAAGCAGTGTCATGTGTGAAAAGTTTTGGTAGAGAATGTACTTTCTTCTTTCCAGGAGTGAATCCAGTTGGGATAGTATGTGATAGCTGCAAGTTAGTCAACTAACTTCTCTTCTGTAGAGCAGCAGATCAGTCATCATGAAACATGTTAGTTAAACTTATTAATGAGATCTTGATGGTCTCTTTCAAACCAAGGGGATTAGTGAAAGGGAAGTTTGTTTTCATCAGGCCCATGCTTCTGACATTCAGTGTATATCCCACCCGTGTGCTTTCCAGGACAAGGGGTTTGGTCATTTCTCTTGGTCTTATTTTGATTCTTTTCAAGGAATTTTTATAGGAGTACTCTTTTATATTGCTTGCACCCTTCAGAGGCTTATACCTTCTGCGGGGTCAGGCCCTAGCGCCTACACTCATAAGTGTGGTGGAATTGCCTGGAAAATGAAGTACCTGGGAACTGGTTGGCCGGGCCGTGTCCTCTGCTGCCTCTCAATCGCCAGACCCACTGGCAGTAAAGCCGAAAATAAACTTTTTCGGCTTCTCCTGAGAACAGCCAGAGCTTGGAGAGCTTTTGAGTTGCTGTACATTCTTGCAGCTGTTTATCTAGTCTTCATCTAGTGTAAAGCAAGAATTTCTGTGAAACGGTAATGTATTAGGACAGTTAGGACAATGAAGCACATGGACTGCTTCACTCGAGCTCAAAGCATTCTGAGAACTGTAAATGGATGAAACAAGGAAAGATTGTAAAGCCAGAAAAACAACTTTAAAAAGTTCATTTGATTCTTCATTTTTATTTCTAAGATAAGTTTATTCGGGCTTGTGATTTTTATTTAAAATAAAACACCAGCTGGAGAGTGGGAGTGGTGGCATGTGGAAAGTAAAACTTAGAATCATGTAGACACAAATAGGAAAAATAGGAAAGGAACACAGATCTGGGAAAGGAATTGATTTTAGAAAGACAAAATTTTGAAACAATAGATGTTTTTAAGGTGATTAGAAAATGGTCAGCATTGTCCCTTTAATTTAGATGTGAGCTGAGCCTCCTGCTATATAGTAGTGGGTTTTCCCCAAAAATATTTAATGCAGTCAGGTGCCTCACACTTATGTCTTAGCTTGGATGCAATTTTCTGCTCTACTGAGTTTATCTAGAGCTCTTTGTTGGCAGCAAAACAAACTTCTCTTTTTTCTACTGAAAATACATTGTCTCATTCATTCTAGCAAATTAAACTTTTGCCCCCCCCCCTTTTTTTTCTCACTGAAAGCTCTTGAATTTTAAAAACAAGCTCACTTGTTTTTCCTTTATCTTTATTTTTGTCATTATAAAAATAAATAATATTGGCACTCTATTGCATTTAAAGTTACTATTTTTGTCTGAAATAATTTCAAAAGGAAAAATAGGATGACACTTTTAAATATGTATGTATCACATCTGTGGTAAGACATTTTGGAAAACATATACAACATTAATTCTTAGCTTTAGTAACTGCAAAATTATTTTAAAATTTGCAGTAAACTACTTTAGAACAAGCAACTTTTTCATGAAAATTTCCCAGCCCTCTTCTCTTGTGCCTCTTGCTTTGGATTGCTTTTGTTTAGAGAAAGAGACCAGATTAAACTTCTTGGGTATTAGGAAGGATTTGGGCTCCCATATTTCATTTTTTGAGTTAGTCAGTTCCTAATGACATGCAGGTTATCAAAGTAAGCACATAACCTAAAAATGCTTCCAGCTATCAGCTTATCTATTTGCCTGTGAATTTCTCACTTCTGATTTACTTTCCCCCTACTGTGGAGTCCAGTTCAGAAAGTAGTGACCAGGAAACCCTGAGTAAGTGTTGAAGAAAGGTTCCAGCTGAGCTAAAGGTCAAAAGCAGTTGAGTAATCTATGTCATGGTGTTTGGGGAGATGGTAATCCTTCCAGTAGAGTGAATAGTCAACCGGTGTCTGACGTTAAACTGAGGTTGTATCTGTATCTTCAAGGGCAGATTGTTATTGCAGATTTGTGGAGTTGTGTAAATAAAAGGAAGATTGAGGTGCTTCCATGTTTTTCCTTCTTTTTCACCTGCCATCTCTTCAAATGGAGTTAGTTCATCCCCAGTCCTGTTATATAAAATGTTAGGAGCATGTCTGGGTGTTTCCAGATAAAGGGGTCTGGCAGGTACTCATTTCAGGCACTGCACTTGGTGGGGACCCTCAGTGGCTTCACAGCCCACCCATGACTCAGGTTGTGAGACTCCAGTTTTTGAGTTCAACCACCTATTGAACTCAGACTTCCTAATCACACACTTGTCAGTCACCTGCATCAAAACCTGCAGCCATTTTGACCCCTTTCTCCTGGGCAGCAGCCCCTCTTCTCCCCCTACCTGGCCAGACATACCTTCCCTGCCTCATCCTCATGCCAGCATCAGCCTGCCAGCCCCCACCCTCAGGAGAGACTCCTTCCTCGTGTGCTGACCTCGACAAGTCCTTGCGAGCTGGGGATAAGCAAGACCGCCCAGGCAGAGGAGAGGGAAGAGACAGAATGAGCGACAAAGGAAACAGTAAAATTTGCAGAGGCCCCCACATCCAGTGAATTCAGCAAATTGACTGGAATAGATGATAAGAAATGTCTAAGTCCTTCTGAGTACCAGAGAGGCACCGTGGTGAGAGGAAGCGGGCCGCCCGGGCTCGCGTCCTGGCTCCGAGACGCAGAGCTGTGGTCGTGAGCCGGCTGTGCTCCATCCGCCTTTGGACTGTTGTTTCTTCACATTCTTTCCTGCTTAACTTTACCTTATACTCTTTTGTGAGTATTAAATGAGTTAGTGCCATGTCTGACACTGATGATAAATATAAGCTGTATTATGATCCTCATCTTGGGAACATAGGGTGGGGATGACAAGCCTTGGAACACCGGGGAAGTGGTCCAAGAACTTGGACAGGGCATTTGTAACCTGAATTCTCCGGGAGTGAGGAGATACTAGGCTCCTAGGTGGAGTTTAAGGTAAACAATGTGCACACAGTGCTTTGCTTGCTGTACAGAAAGAATACAAGTTAGCTGTGTTGGCTGCTCTTTCTCTAAATATTGTGTCAGAGACATGAAGCTTGCGATTCTATTCTGAAAGCAAAACAGTGAAAGATAATAAAATAACCAGAGAGCTCGTCAGATGACTGTGTAATGGTGAATTGTTTTCTTGCTCAAACATCAGTTTAAAAAAGGAAAGAAAAAACCTTAGGAAAACCTTGCAGTCCGGTGGGGTGGAAGCTGTGTTTAAAGGATGCCTTGAGAAAAGGGTTGTATCAGTGTATTGTGTGATTGGTCTTGCCCTCTGGTGGCCAGTTTAAAGCTCAGCAGCTAAGTGTGTTTCAGGCCAGTTTCCCAAGCACCTGCCTTGTAATTACCCCATAGTGAAGTGAAGTCGCTCAGTGAGTCTGCGATCCCATGGATTGTAGTCTACCAGGCTTCGTTTGTCTACCAGGCTTCTCTGTCCATGGGATATTCTAGGCAAGAGTACTGGAGTGTGTTGCCATTTCCTTCTCCAGGGGATCTTCCTGACCCAGGGATTGAACCCAGGTCTCCTGCATTGCAGGCAGACGCTTTACCCTCTGAGCCACCAGGGAAGCCCTCCATATGGACCAGCAGAATCAAAGTCTTGACTAAATGCAAATACTTTCCCTTTCTATTTAGAGGAATTCAATCTCTTCACTTCTGTCTTTTATATCATGTTATTTTAAGAAGATTTTTGAAAATTGTTTTCATTTGGTTTGCCCTGCATGTCTGTGATATAACATGATTATTTGCACATTCTTTAAATTGTAGTATATTTCTTACTTTGATTCTTGTCTGTGAGGATTCCCTATGGTTCAGTCACTCACCCTCTGGTTTGAATTTTTATAAGTCACCCCTCTTTTGGAGCTTTAGCTCCTGTCATTGTTGCTAGTCCCCATCTTTTGAAGAAGCATTCCTGTAAGTTTTGCAACCAGAGGGAGGTTTTTATTTGAATGTCTCCTGTCACTTCAAATGCAGCGAGGCGCAAGTCAAATGTCACGCTCCCTTGCTCTGACAATGCACCTTCTCCTCCCTTCCTTACGTTGTCCTCATCAGTGACACTGGCTTTCCAGTGGTTGAATAGACCCAGAAACCTTGCCATTTCTAACCTGTCCCTTTCCTCACTCACTTGGGATAACCACACCAGCCCTGGCTTTTAGAACCAGAAATCTAAGTTTGAACATCCACATCTAAATCTTGATGTTTGAAGTAACGCAGACCCCATTCACTTTACCAGGGATTGTTAAAAAGCAAATACATAAATATTAAAATACTTTTTGTTGCTGGGTATTCAGTTCTTTTCTGTTCACTGTTCTGGCCTAAAAACATAATGGACCAGTTAAGTTGTAGAATAGTGTTAGCTTATGTTAAGCGGGTTGAAGTCAAAGCCTAGAGTATAACAGCAAGATACACACTTGTGTGAATGCTAGAATGTTTTCTCTACACACATAAATTATGCCCTCTCACATTGCATCCTGTACAGAGTCAGCTCCAAGTTGCCTGGTCTAATGCGGGAAATAATCCGTAATGTTTAAGAAAAATTAATAAGCTGCCCTGCATCTACACCTCTCCAGCCCTGACTCACGACCTGTTCCTAATGGTACATGCATCTTCTTGTTTTTAATTTTCAG
Seq C2 exon
ATGTAACGTTCATTCATGAGGGAAATAAAACATTTCTGGATAATCTTGTCAACTTTGAAAAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015539:ENSBTAT00000033832:24
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(15.7=100)
A:
NA
C2:
PF0061714=RasGEF=FE(11.4=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:
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]