BtaALTD0020324-2/2 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000017746 | SLIT3
Description
slit homolog 3 protein precursor [Source:RefSeq peptide;Acc:NP_001178379]
Coordinates
chr20:356580-359361:-
Coord C1 exon
chr20:359222-359361
Coord A exon
chr20:358823-359221
Coord C2 exon
chr20:356580-356673
Length
399 bp
Sequences
Splice sites
5' ss Seq
GGCGTGAGT
5' ss Score
7
3' ss Seq
CTCTCTACCCGCCCCACCAGGTG
3' ss Score
9.41
Exon sequences
Seq C1 exon
CTGCTCCTGCCCTCTGGGCTTCGAGGGGCAGCGGTGTGAGATCAACCCAGACGACTGCGAGGACAACGACTGCGAGAACAACGCCACCTGCGTGGACGGGGTCAACAACTACGTGTGTGTGTGCCCGCCAAACTACACGG
Seq A exon
GTGAGCCCCCGACGCCCAGGGGCGGGCTGCCGTGCGGGCCTGCGTGGGCGTGGCGTGAGTCCCCGACGCCCAGGGGCGGGCTGCGTGCGGGGCCCTGGGTGGGCTTGGCGTGAGCCCCCGACGCCCAGGGGCGGGCTGCCGTGCGGGCCTGCGTGGGCTTGGCGTGAGTCCCTGACGCCCAGGGGCGGGCTGCCGTGCGGGGCCTGGGTGTTCCCGCCGCCCAGGAGCGGGCTACCTTGCGGGGCCTGAGTGTTCTCGACGCCCGGGGGCAGGCTGCCATGCGGGGCCTGGGTGGGCTTGGCGTGAGTCCCTGACACCCAGGGGCGGGCTGCCATGCGGGGCCTGGGTGTTCTCGACGCCCGGGGGCAGGCTGCCATGCGGGGCCTGGGTGGGCTTGGC
Seq C2 exon
GTGAGCTGTGCGACGAGGTCATTGACCACTGTGTGCCGGGGATGAACCTCTGTCAGCATGAGGCCAAGTGCATCTCCCTGGACAGAGGATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017746-30-31,31-31-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(32.4=22.9),PF0000822=EGF=PU(90.3=58.3)
A:
NA
C2:
PF0000822=EGF=PD(6.5=6.2),PF0000822=EGF=PU(63.6=65.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTCTGGGCTTCGAGGGG
R:
TGAATCCTCTGTCCAGGGAGA
Band lengths:
223-622
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development