BtaINT0122413 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015539 | RAPGEF5
Description
Rap guanine nucleotide exchange factor (GEF) 5 [Source:HGNC Symbol;Acc:HGNC:16862]
Coordinates
chr4:31017033-31020150:-
Coord C1 exon
chr4:31020096-31020150
Coord A exon
chr4:31017152-31020095
Coord C2 exon
chr4:31017033-31017151
Length
2944 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
TTCCCCCTTCCCCAACATAGGAG
3' ss Score
8.07
Exon sequences
Seq C1 exon
CACATGATCGCCGACACTGTCCGGACCCTTAGACACTGCAGGACCAACCAGTTTG
Seq A exon
GTGAGTCGTTGAAGCTGGTTACGGCATGTTCATTTGTCACACATTGGTACAGACTATGGCCATTTCACAAGTATTTGGTGACAGAAAATTAAAACACGTGGTAAAATATAATATTCACATCATATGCATGTATTGTATTTCTCCGTCTCATCACTGCATGTTTGGGACAGAGAGTAAGATAAGAAATGGCAGCTCTTCATCCTGCCCCAGCAGCAGGTTTTCACTGTACAGTGTGACTTACAACTGTCAGAAGCTCCCATTCCAGCGCCCGCCCCCGAAAGTCTTGTTTGCTCGTCCTCTGGCTCAGAATGACCTGTGGGTTTATCAGGGGTGACCCTGTCCTTCACCTCCCTGCCTGGAGCCTTCCTGGAATAGGAATATAGTTTGTAAAAGTGCCCAAAGTAGTTTTCCAGAATCTTTTCTCCTCTCCAGCGAAAACTTCCTGTCTGGAGCTTCCTTTCACTGAAAAAGTGTTTTTTTGAGCTCTTTTGTAGATTCCCCACTGAGACTAATGTATATAGGAATATTTGTTTCTTTTTAAGTCTCAGGAATAATTTACATTATGTTTAAATGATGTTAAGACATTGCAGGAAGGAAGGAAATTGAGATGTATTGAGTTCAGGGAGCTTTCACATGGGCAGTAGAATCCTGACCCCAGGGCTAGTGAATGGAGGTTATTGACTCTGTGGATGCAGAACAGAAGACCCCGGCTCTGAGAGGCTGACTCTCTCAGCCGTTCCTCAGACCACCTGGCTGGTACCCTTTCCTTCACCTTGCACAGACTTTAGAGATAAAAAGGCAGGGGTTTTTTTTTGTTGTTTTTTTTTTAAAGACAGAGTTCATAATTATAAATCAATCAGAAGTGACCACTAAGTAAAACCTAACTTTAAGTAATACATACTCATTGTAAACCAATGTTTTTCAACAATACAGAACTGTAAAGTAGAATGATCAAAGTCCTACTTCCTAAGGAAAATATTGCTAACACTTTGGTACATATTCCTTAAGAATTTTCTTTCTGTTACATACTCTTAAGAATTTTCTTTCCGTTTCCAGTCTTGAGTAGCTTTATTGTCCTCCAACAAAGCAGTTGGAGTGAACTTCTGAGTGAATTACGAAATTTCTACTTGAAAGAGAGAATTATAAATACAGGACCTAATCTTCTGAATGTTCACATCAGCAAATACTATTTGATACATGCTTATATAATTCTCCATTAACTACTCAAGTATAATGCAGTTTCAATAGAAATAGCTAAGAACATTGGCATGGAGATTCATTCAAAGGTATAAGCATAATATTGCTGATGAGTAAAGGATTTGTATTTCTTTCACCCTCCTTTGCTTCCCATGCATTTTTGGGTTCTCAGCAAATTCTGGGACCTCGGTCTCACTTGCCAAGGGCTTCTGGTCTATATACACTGCACATGTGGGCAGGAGGGTTAGAGCAGTGTGGCTGGCCTTGATCTTGCAGTCAACCTCCCATCACCAGAGGATGAGTCTGCAAGACACAAAGCAAAGGAGAAATTTAAATGACCGTCAGGCCATTTGGTGTTTTGTATTTACCTATCTTTAAAAATCAAGTTTGGAACTGAATTACCTAAATTCATTTTGACAGTTTATATAGGCAGGGTTAACCGACATCAGCACTTGGAAAGCCACTTTGAATTACAGAGTGCCCTGCAAGGGTCATGCATCATGGTTGGAAGCATTCCTCTTGCCATCTTTTTAAGACTGGAAACTTAACAACAAAATTATCTTGGGAGCATCATGTTTTCTAAAGCAAACAAGGAGGATGGTAAAACCTTTTAACTCTCGGTGCTTTTACTTTTTGAACTGGAAAGCCTTGTTTCTATTAAACCTAAGGACTACAAGCCATCCATAATATACACACCTTAAGTTATTTCCTTAGAAAACATATCTGTCACAGAGGAGGGGGAAATAGGTTTTCCTCAAGAGAAAAAATTTCTGCATTAGAATGCTCAGCTTCCTGAGGGCCTTTTCCTTCTGCTCAAGCTGAACTCACCCCCTGCTTCTCCATCCGAAACCCCAGGGATCATGGAGGCTCACAGTTACCTTGTGTCTCTGGAATGTAGCTCAGCCCATCTCCACAGGCCATGAGGGGGGTTTTTGTTTGCTTGTTTTTGACTACGGGAAGTGGGCCTGCCCCATTGTCCAGGCTACTTTATCTCTGGTTCCTTATCACAGCTGCCAGCAGCATGGCATGCAGGGTTCACAGTGCTCCAGAGCCTCTTGTGGCCCTTGGTCTGCTGGGCGTTTGGGAGTAGGAACCCCCTTGCCTTGTCTTTTGCTGGGCGAATGTCAGCCCATCCACATACTTCCTGAACCTGCTTTGCCTGTTAACCAGACTTTCAGTTCACTTCAGCAATGTTTGTTCACTCAGTTGCTCCCTTAAATCCTGCACCCCCCAAAAAAAAAGGACACCAAAAAATTATATGAAATAGTTAAAAAAATAAAATACTATTGTGTCCATGTAGTCACCGGATTAGCAGTGATTTCTGACAGTTCCAGCCTATGCAAGAGCCTGTGAAGGCCATTTAGTGGGGAGCCAAGACCAGGGACCTGGGTGCCTCGTGGTCTGGGCTCCAGTCCTGCTCTGCCACTTACCTGCCGTTTCTGTGCTGTTTCCCGTTTGGGGGAGAAGATCATAACAACCACTAAATACTGTATCATGTGAGGAGACATCACTCTCTCTATCAAGGTTGGTAAAACATATCTTGCCAGTCTAATCACCTCACCTGAGGAATCTAGTCTGAGCCCAGAAAGCATCTACGTGATTAGCAAACAGACATCTCTTCTGGGATTATGACAAATGAGGGTCAACTTTCTGGAGTTACACTGTATCTTCATGCAGGGTTTTACTGGTATTTAGAAATAGCTTACTGCTCTCATGAGATTGACTTTTTCCCCCTTCCCCAACATAG
Seq C2 exon
GAGGTGACATATCTCCAAAAGAGCACCCGGAGTTAAAGTCGTACGTGCATCACCTGTACGTCATTGACAGCCAGCAAGCCCTATTTGAGCTCTCGCACAGGATCGAGCCGCGGGTATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015539:ENSBTAT00000033832:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.105 A=NA C2=0.077
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=PD(0.5=5.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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]