BtaALTA0024480-1/3 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000020791 | RAPGEF1
Description
Rap guanine nucleotide exchange factor (GEF) 1 [Source:HGNC Symbol;Acc:HGNC:4568]
Coordinates
chr11:101759271-101761647:-
Coord C1 exon
chr11:101761445-101761647
Coord A exon
NA
Coord C2 exon
chr11:101759271-101759426
Length
0 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
CTTGCTCCTCTGTCCAGCAGGCC
3' ss Score
7.59
Exon sequences
Seq C1 exon
TGCTGGCCTACATGCAGCTGCTTGAGGACTACTCGGAGCCACAGCCTTCCATGTTCTACCAGACGCCGCAGAAGGAACACGTGTACCAGCAGAAGAACAAGCTTCTCATGGAGGTGTATGGCTTCAACGACTCCTTCAGCACCGGCGACGCCGCACACGATCTCGCCCCGCCCCCCGCCCTGCCCCCCAAGCAGCGGCAGCTG
Seq A exon
NA
Seq C2 exon
GCCTCCTGTGCTGCTTCTTCCTTCTCCTCTGTCTCCTACTGTGTCCAGCAAACTAAAGTGGCCTTCACCCCCGAGGACGGCAGTGCCGCTCAGGGCATCAGTGTGTCCGTCTCTAACTCCTTTCTCAGCCGGCACGGCAGCTTACCTGTGCCCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020791-18-33,18-32,18-31-1/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.485 A=NA C2=0.019
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:
GCTTCAACGACTCCTTCAGCA
R:
AAGGAAGAAGCAGCACAGGAG
Band lengths:
106-109
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development