BtaINT0122409 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015539 | RAPGEF5
Description
Rap guanine nucleotide exchange factor (GEF) 5 [Source:HGNC Symbol;Acc:HGNC:16862]
Coordinates
chr4:31031779-31034168:-
Coord C1 exon
chr4:31034078-31034168
Coord A exon
chr4:31031830-31034077
Coord C2 exon
chr4:31031779-31031829
Length
2248 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TTCTGTTTGTTTGTTTTTAGAAA
3' ss Score
9.71
Exon sequences
Seq C1 exon
CTGCAAAGCCCAGAGAAACCTGAACTCCTTCTTTGCTATCGTGATGGGTCTCAACACTGCTTCTGTGAGCCGGCTATCTCAGACCTGGGAG
Seq A exon
GTGAGCCTTGGGGGTCCATGGCAGGGATGGAGTGGGTGGGAGAGGACAAATAACACTGAATGGGAAATGTTCCACCGAAAAGTCCTTATTTAAAGTAAATTGATTTAAATGGTTTAAATGAGAGAAGTACCACTAGAAACAAATGTTATAAATTAGTGTCTCAAGTCCTTAGGAACTGTTTTTCTCCTTAAACTTTTTATATTGTATTGGGGTACAGCTGATTAACAATGCTGTGATAGTTTCAGGTGAGCAGTGAAGGGACTCAGTTATACATATCCATGTATCCATTCTCCCCCAAACTCCCCTCCCATCCAGGCTGCCCCAACTGAGCAGAGTTCTATGTGCTATACATTATTGGTTATCCATTTTAGCTTATGGTTGGTTGTGGGGGATAGTTTGGGAGTTTGAGATAGGCATGTACACACTGCTATATTTAAAAGGTGTTAGGAAATATTTTGATCAAGTGGTCTTCAAAATGGTTCTATAATATATATGAAAGAAACAAAAATTGAAAAATGCCTCCTAACTTGAATTAGTTTTCTGTTTTTCTCCGTGATGGCATGGTTACAGTTTCATGTTGGTCCTTTCAAAAGCTCCGTTTGTCCAGAGGCAGATTTGCTGAGATGCTTATGAATTTAAGCTACCAGGCCTCTCATTTGCAATATTCCTGGCAGTATGTTCACGTGGATGGCAGATATCTTTGCAAAATTTACAAAAGTAGTTTTATATTCTTTTTTTTTATTAAAAAAGAGGGCCCACAAAATGTTATATGTTCCAGGTCTCCCAAATCCTGGTTCTGCCTGTCACTGTTGTATGATCAAGGCCATTGGGTTCTCAGAGAGAGACGCCCACTTGAGCTGATGACTTCAGTGTTTCTAGGCCTGGAAAATGATCACACTGGCCTAAGTAGTCAATAGAGGAAAAGTTGGTTTCAGGAACTAGAAGAGAGGTCAGCAGTCATTTGGGGTAAAGGGCCAGATGGTGAATTTTTTTTTTGGCATGTTGTTTCCATTGGCATGACTCAAGTCTCCTATTGAAGTGCAAGCCCTGTTTAGTCTGTAAATGATGAGCATGGCCATGCTCCAATAAAACTTTATTTACAAAAGCATGGGGTCATATTTGGCCCATGGCTGACCCCTTGAGTAGATCAGTTTGGCCCTAGATGCGTTGAGTTTGACGCGCAACTGAGACATTTTTGTGGGATATCCAAAATACTCAGGTATGCAGCTCAGAAGAATAGTTGCAGGTGTCTGCATTTTATCGTTTCGCATTTATCATCCATTTATTAATACGTATGTGTTGGTGTGTGTAACAGTAGTTTCCAAACAGGTTGAATAACCTGTGTTGTTGAGTCCATATTCAGAATTATCAAATTGATATTTAAAAGTGTAGTTATTGTAAGGGTTTACCTCATTGTTTTGATTTGTTTTGGAAACAGAAAATCCCACACATTTTGTAGAACACTCGTAAGTGTTACGTGCTGAAATTTGCCGAGCACCAACTGTCGACTGTACGTTTCCTGTGAGTAGTCTCCATTTCAATCAGAGAACGTGGAGACTGGCTGCAGTCACACAGCTAGAAAGAGGGCAGAGTCAGAATTCAAACTCTGACTGACTACCGAGACGTCTGGCTTTCCTACTTCACCAGAGTAAGGGCAGGCTGGGAAATCCCAGGCCCTTCTTCCTTAGGCCCAAATTCTTATTTGGGAGGACAGTGTACGTTTCCATCCCCTGTCAGTCTTCAGGCCACTGTTTGCATGGGTGATCTTTCCAGTTTGGTGATTCTACCCACTAAAGTACAGGCCTCATCAATGAGGGTTTTCATGGCCTTTCACTATTTAAACCTCTGCTGTGAAACATCATTATATCATTTATACAAAAAATATCAGTCAACATTATTACTTCCCACTCAACAAGACCATTTAAGAAGGTGAGAGCGTTTGTCAAGGGTAGGATACAGAACTGAAATCCAAGCTTTCATGAAAAGATCACCAGTGTGTGGACTGTCTTAAGTTGGATTCCTAAATCCTGTGGCTGCTATTCATTTTAAACTGTCTTTAGCAACATTCCCAAGGAACATCACATTAAGGAATGATGAAAATTGAGTAATGAGAAGCAATCAAGGTAGAACCAGTTGATAGAGGGATTTATGTTCAGAAATGTGAAGTATATAGTGCAACTTAATGAACATTCCTCTCAAAATAACTGACTTCTTTTGACCTTTTCTTTTTCTGTTTGTTTGTTTTTAG
Seq C2 exon
AAAATCCCTGGGAAGTTTAAGAAACTTTTCTCTGAACTTGAAAGTTTAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015539:ENSBTAT00000033832:22
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(16.2=100)
A:
NA
C2:
PF0061714=RasGEF=FE(8.6=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]