BtaINT0122300 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020791 | RAPGEF1
Description
Rap guanine nucleotide exchange factor (GEF) 1 [Source:HGNC Symbol;Acc:HGNC:4568]
Coordinates
chr11:101734354-101736446:-
Coord C1 exon
chr11:101736358-101736446
Coord A exon
chr11:101734443-101736357
Coord C2 exon
chr11:101734354-101734442
Length
1915 bp
Sequences
Splice sites
5' ss Seq
TATCCTTGC
5' ss Score
-28.57
3' ss Seq
TTAACTCGGGCTCCACATACGAG
3' ss Score
-3.2
Exon sequences
Seq C1 exon
ATCTGGTGTTGTACTGCGAGGCCTTCCTGACCACCTACAGGACCTTCATCACTCCTGAGGAGCTCATCCAGAAGCTGCAGTACAGATAT
Seq A exon
CCTTGCCGCCTCACCCTCCTTCACAGAGCCGTCTGCAGGGTGGGGTCAGCGATGAGGGGCAGTGCCCAGCCCAGCTCTGTATGTCCCGGCTTGAGGCCTCAGGCCAGGCTCCTTTGAGCCTCATTCTGTCTTGAGAGGGCCGAGTGACGTTACGTGATGTGCTTGGAACAGAGAGTGCTGCCTGGTGGCCATTGTGATCACTGGGTGATTCTGAGACGGAAGGACCTGATACGCCCTGAGGGGTTTCCCAGGTGGTGCTAGCGGTAAAGAATCCATCTGCCAATGCAGGAGACACAGGTTCTATCTCTGGGTCTGGAAGATCCCCTGGAGAAGGGAATGGCAACCCACTCCAGTGTTCTGGCCTGGAGAATCCCATGGACAGAGGAGCCTGGAGGGCTGCAGCCCACACAGTCGGACATGACGAGAACAATGCACCCTGAGGGAGGGAGTGTGTGGGTCCCGGGGATCCAGGTCACTGGCATGTGCAGCCTCTGGGAGCTGAGCCCTGGGCACCGGGGGTGACAGGTACAAAGTGCACGGGACGTGAGGGCATTAGGACTCCAGGGAACAACCCCAGGGCAGGCCCGGCCCCTCCACCTGCCAGCAGGCCCAGCAGTGGACAGAAGCTCGGCGTCCACGGCTCGCCCTTTCAGAGACGACGCCCCCCAGCAGTGGCCAAGGAAGACCCAAGGCCGGCAGGGACCTGCTCTGTCGCCTCTGTCTCAGATGCAGTCTTGCCCCCCCCTGCCAAGACTGACCTGCAGCTCCTGTCCCAGAAGTGGGTCCCCTCCCGGCCTCGTCCTGCGTCACAGCCCGTGGCTGCCACCTGCTGGACAGCCCAGCCCTAGGCGGGCAGGCCTGAGTCCTTCCACTCTCCCCGCCCTCCCCTGTGCCCAGGCGTCCCCCGCCTGGCCTCCGTCTCCTCTGTGACCCGCCTTGAGGCCCCGGGCCCTCAGAACCAGACGGCCCACGCACAGACTTCCTGCCCTCCAGCCTCACACCTGCAGTGGCCGCAGTCCTGGCTCAGTGATGAGTGACTCACACCTGCTGAGACCCTCCTGGTGTCGGCTGTGGTGCAGAGCGCTGCACGGGCGACCTCACTCGGCTCTGATAGCATTTTATGTACTTATGTCACTGCACGGCAGTGCCCTGATACTATTTCCCACCACGTATAATTAGGGGAAGCGAGGTTCAGAGAGGGTCATGGGACCCGCATGGCAGTGTGGAGGAAATGCACCCATGCCCAGGCCTCCCAGACCCGGCTTCGCAGCATATACTCTGTGTGGCCACTTCAGGCATTTCAGTGGACAAGTCACAGCACCAGGACCCTGGGCACAGCTGGCTGGCGAGCCTTGGTGCGGCAGGCACCAGCATGGTCCCTGGTCTGCAACTCCCTCCCGAGTGCATTTCTAGAGAGCGGGTGGGAGGGAGCCGAGAAGGGTCCGGAGACGGCGAACCCAGGAGGGCAGCAAGAAGCCATGACACCCCAGGGCAGTGGGTCTCCAGAGCTGGGGAAGGACCTGGGGATGGATGACGAGAGTGACCTGCCCTGCCAGGCTGTGCGCCTCCCCCAGGGAACTGCTTTCCTCTGCCTGAGCTCAGGAGGCAGCTGTGTGTCAGTGCGTCACAGGGACCTTGGGTCCACCCAGGTCCACCCAGGCAGAGAGGCAGGCCTGGGCATGCAGGCAACGGCTCTGCAGGCAAGAGAGGCTGGTGGTCAAGAGCGATCCTCAGGGTCAAATAGGTGCGGGCTGACCCCCTTCACAGCCCTGCCACCCCGCACAGGCCTCTGCCCTCCCCATGTTCCCAGGGTTCACTCAGGAAGGGAGGAGGAGGAGGAGGAGGGCGGCCTTCCCTTCACGTCCCCACCCCTGCCCGCGAGGACGGCTGTTTCTTTAACTCGGGCTCCACATAC
Seq C2 exon
GAGAAGTTCTCACCTTTCGCCGACACATTCAAGAAGCGTGTGAGCAAGAACACGTTCTTCGTGCTGGTGCGGGTGGTGGACGAGCTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020791:ENSBTAT00000032663:18
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:
PF0061815=RasGEF_N=FE(28.4=100)
A:
NA
C2:
PF0061815=RasGEF_N=FE(28.4=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]
SPECIAL DATASETS
- Pre-implantation embryo development