BtaINT0122347 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006828 | RAPGEF3
Description
Rap guanine nucleotide exchange factor (GEF) 3 [Source:HGNC Symbol;Acc:HGNC:16629]
Coordinates
chr5:32708681-32711502:+
Coord C1 exon
chr5:32708681-32708720
Coord A exon
chr5:32708721-32711420
Coord C2 exon
chr5:32711421-32711502
Length
2700 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTCT
5' ss Score
2.57
3' ss Seq
TTACTTCCTCTCCTTCTCAGGCC
3' ss Score
10.44
Exon sequences
Seq C1 exon
GTTGGAGAACGGCTGTGGGAACGTGTCTCCGCAGATGAAG
Seq A exon
GTGTCTGACCCGAGTGGGCTCCTCACGCCTCTGCTGGGCCCCTGCTTTCCCCCTCCTCCAAGGACCTCCAGGCCCCTCTGCATGGGAAGGTCCCCCCCCAAACACAGGCACATCCTTGGTCTGGGATAGGTGATCATGGAGCTCGGGCTGCGTGTGACACTGGGGCTGGGCCTTGCAGGAGACAGAGGTCTAAGGTCACTCCCCCCCATCCCCACAAGAGGTTTTATTCCATCTGGTCATGCTCACATGTGAGCTAAGTTGCTTCAGCTGTGTCCAACTTTTTGCGACTCCATGGACTGTAGCCCATCAGGCTTCTCTGTCCATGGGATTCTCCAGGCAAGAACACTGGAGTGGCTTGCTATGCCCTCCTCCAGGGGATCTTCCTGGAGATCTCTGACCCAGGGATCGAACCCACGTCTCTTATGTCTCCTGCACTGGCAGGCGGGTTCTGTACCACTAGCACCACCTGGGAAGCCCACTCATGCTCCCAGCTCGAGCCAGTTAGCAGTTCCTGCCTGGCAGGTGAGGGGTGGTACCTGGAGGCAGCTCAGAAACCCCGGGGTCCTGGGGCCAGTGCCATCCCCAGCAGTGGGCTGGGAGCGGAAAGTGGGAGGAGGAGTCCTGACTGGAGTGAGATTTGAAGAATGGGGTGGCGAGGACTGGGAAGGTAGCTGGGGCCACCTTGGAGACTCACAGTGAGAATCACACCCAAATGCCACATCTGGGCCTGCAGGGCCCAGCTGGCTCTCCCACCTCATCCTGCCCCCTTCCTCCTCGGACTCCTTTTCTGCTGAAGGTGAAGCTCGCTCCCTCCTCGTCTCCTGCCCCCTCCTGCTGGCCCCTCCCATCTCCCTGTGAGAGCCCCTCCCCCACTGGCTCCTCTCCAGGGTGTCCTCCGTGGTTTTCCTCAAAGCTTTGTCCCAGTGGAATTGTTTTCTTTGTTTAGTTGTCTCCTTGCTAGTTGTCTGCTGGTGTCTGTCACGGCCCACTAGAATGCTGGCTCCATCCCTGAGGGGCCTTGACCTCAGTGAAGAACAGGCTGCATGCCTTAGGTGCCAAATATGCTGTAGCGGGTTGGGAGAGCCACCCTGGCCTCCAGTGGCTCACAAGGAAGTGAGGGACAGAGCTGCAGAGCAACCTCATGCTGAATAAGGACAAAGATGGGGTCTCTGGAGGCAGGAAGGAAAGGGCTGAAAAGGAAAGTGTCAGGGTCAGGGAGAAGCGACTGCTGGAACTGAGAGATGCAGGGAGTGAAGATGGAGGGAGAAGAGGCTGCAGGCAGATGTGGGGAAGGAAGCCCGCCTCCTAATGGAGCCCTGGAAGGGCCAGAGCAGGTGGGGCCCTGTGGGCCCTGGAAAGGGGCCTGGCCTTTGTCCTTTGAGCATTGCGAGCCATTGGAGGTGTTTGAGCCCAGGATTGACAAGATGGGATTTGTATATTGAATAGGTCAGCTGGGGAGCCTGAGCTTTGTTCAGCAGACAATGGTGGCCTGGACACTGTGATAGGAAGGTTAATCTGGCTCTGGTCAGGCAGATGGGAGTGGGAGGGAGGGAGGCACCCGAGAGGCAAGGCTGGCGGAGAATAGTTGGCGCTGTTATAGAAGATAAGGCGTGAGGAGATACGGGCTGGTGGGTCTGGGGATGGCCTGGGCTGTGGAAAGGGGAACACAGAGACCCTGGAACTAGATGATACTCTGTGGGGGAGGGGAGCAGGGGGGAGCAGGAGGCTTGAACCCAGGGGAATGGCCGGAAGAGTAGCCTGGGAGGCGGGATGAGGGGATCTGAGGAGTGTGTCGAGTTTGGGATGATGCAGCACAGATATGGAAGATCCTGGAGGCATTTGAGACCAAGGTCTGCAAGAGAATTCAGTGCCCAGTGGTATGGTTTTAAGAGTCTTCCATATGCTGGGGGCGGAGAGAAAGGAGGTATTGGTGCGTGATGCTGGGAGGAGCCCTGAGGGGAGTGCAGAGATTTGGAAATCCAGGGAAGAACCATGGACCAAGGTCTAAACCTCATCTGCCTCCTTCAGAGTTGGGAGGAGGAAAACAGTACAAAATCTGGAAAGAATAGTCGGTGGGCAGAGGAAGTGTGTGAGGGAGGCCTTTAGGCAGTGGGGGCCCCCAAAAGCCCACTGTGGTGGGGCCTTGGAGGAAGGGTTATGGGGCAGCTCACACAGTTGAGTGTTGCTGGACAAGAGCATGGGGGAGGGGGAGCGGGGGGGCAGGTTTAGAATTTTAGCTGGGCCACTTAGCAGCTGTGCTGCTTTGGGTATGTTACTTAACCTCTCTGAGCCCTCACTGATTTTATCTGTAAAAGGGGATAATAATATTTTGTCAAAGGGCTTTTGTGCATATTTAGATACTTAAAATAAGCATGTAGAAAATAGCAAATGGTAGCTGAAGGAGGAAAAGACCAGGATCAACAGCTGCCTTGTGTTCATATTAGAGAGGCTCTGGACCCATTTGGCAGAGGGGGTAACACACATATAGAGGGGCACAGACTCATTCTGAGCTCTGCCCTGTCTTCCTCGGGAGCCTTGGTCCCCAGGTTCCCAGCGCCTTACCTGCCCCGGGTTTGCGGGGCACGCAGATCCCTTAGGTGGTGTGTGTGCTGTGCGGGACCCCCGCTCTGGGTGACAGGCCCCTCCCCTTCCCTGCATGCTCTCCTGTGTCAGCTGGTCCTTACTTCCTCTCCTTCTCAG
Seq C2 exon
GCCCGGAATGTTCCCGTTTGGCTCCCCAGCCAGGACGAGCCTCTCCCTAGCAGCAACTGTGCCATCAGAGTTGGGGACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006828:ENSBTAT00000008976:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.714 A=NA C2=0.250
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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]