BtaINT0122305 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020791 | RAPGEF1
Description
Rap guanine nucleotide exchange factor (GEF) 1 [Source:HGNC Symbol;Acc:HGNC:4568]
Coordinates
chr11:101731126-101732547:-
Coord C1 exon
chr11:101732453-101732547
Coord A exon
chr11:101731205-101732452
Coord C2 exon
chr11:101731126-101731204
Length
1248 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
3' ss Seq
GTCACCCTCGGTCTACGCAGGGT
3' ss Score
7.16
Exon sequences
Seq C1 exon
ATTCCTGAGGTTTTGCTTTGGGCTAAAGAGCAGAACGAGGAGAAGAGCCCGAACCTGACCCAGTTCACGGAGCACTTCAACAACATGTCCTACTG
Seq A exon
GTGAGACGGGCCTCGACGCGGACCCTCCTGCCGGGCCGTGGTGCCTTCGCAGAGTGCCCGTGGCTAGGGGAAAGGGCTGCCCTTTCGTCCCTCCCTGCTCCTTCTGGAGACCTGTGAGCATTCACTGTGACCCAGAGGCAGGGCAGGACAGAGCGTGTTCTGCGTGTCGAGAAGGGCCCCCTGGGGACCAGTTGAGGAGGACTCTGGCCAGGACTGATTAGTAATGTCTGCCATCCATGGCCTCAGGGGAGGGTCTTAGCTTTGTCATCCTGCACTGCTTAGGGCCCCACGGCCCCAGGGCTGATCCGGCACACTGCCTGCCTGAAGAACAGCGAAGGAGCGGCTCTGTTAATACTTGATTCAGCCTTAACCCCTCAGAGCAGGGTGAAACCCCATAGAGCGTTTACGATGTAACGCAGCAGAGCCACTGGCTCCACAGTGGGATGTGGGGCGCCCACAGCCTCTCAGCCCGAAAGAGGATGGTCAGGGCGTGGCGGCCAGGCAGGCTTATCCTGACCCACACACAGCCCATCGCCAGCACCAGGGAGCGTGTGGGACTTTTCAAGCACTCTGAAGATAGTGTGCTGGGGAAAGCAGGGCCTCTCCCCCTCGGCCTGCTCCCCTCCGCTCCCCCAGAAGCCTCTCGCACCTCAGCATGTGCTTGGTATAGCTGCCTCACAGAGGCCCAGGAGGTTTCCGGTCCACGCAGCCCTGAGTGCCGCCACCAGCTGCCCCTTGCTGGGCACTGGGGGCTCCAGACACACCCTGGGTCCTCCCTAGGAGGGTAGGTGGGGCCCTTCAGAGCCACGCTCCTCAAGGCAGACTCAGTGCCGGTGCCCCGATGGGTCAGACGATGGGGGCACTTCCTCTGGCCAGCACGGGGTTGAGGCCACCATGAGGTCCTCGTGCGAGCCTGGCCTTAGGCTGCGGCTGAGGTTCTAAGAGGTGGCCTCCCTCGTGGCCTGCACGGTGGCGTCTTAACCCACACGCCCCCTCCTCTCCCGAGCTGATCCTGAGGCTGGTCACGGGGTGTTTGCAGCCGCCCTGGTGCTCGGGGTCAGCGCTCACCAGGAACACCCACATCCATGGGGTCAGAGGTCCCCATCCTGGAGTTCAGCACTGGTCCCTTGGTGGGCAGGGGCTCGTGGCCAGTGGGTGCAGGCACCCACCTCCGATGCCCAACTCTGAGGGCCAGTCAGGGGCCCGGAGGGAGACCAGTCACTCAGCTGTCACCCTCGGTCTACGCAG
Seq C2 exon
GGTCCGGTCGATAATCATGTTGCAGGAAAAGGCCCAAGACAGGGAACGGCTGCTCTTGAAGTTCATCAAGATCATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020791:ENSBTAT00000032663:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.094 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=FE(17.4=100)
A:
NA
C2:
PF0061714=RasGEF=FE(14.6=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]
SPECIAL DATASETS
- Pre-implantation embryo development