BtaALTD0015112-3/3 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000044132 | NTN5
Description
netrin 5 [Source:HGNC Symbol;Acc:HGNC:25208]
Coordinates
chr18:55748199-55748815:-
Coord C1 exon
chr18:55748666-55748815
Coord A exon
chr18:55748406-55748665
Coord C2 exon
chr18:55748199-55748252
Length
260 bp
Sequences
Splice sites
5' ss Seq
CAGGTCCTG
5' ss Score
0.7
3' ss Seq
TCTTCTCTGCTCTCTCACAGGAA
3' ss Score
11.46
Exon sequences
Seq C1 exon
CCTGCCAGTGCCATCCAATTGGGGCGACAGGCGGTGCCTGCAACCAGACCAATGGGCAGTGCTCCTGCAAGTTAGGGGTCACTGGCCTGACCTGCAACCGCTGTGGTCCCGGCTACCAGCAGAGCCGCTCCCCCAGGATGCCCTGCCAGC
Seq A exon
GTGAGTCCTGGGGGCGGGGCCCCGAGTCCCAAGTGGGGTGGGAAGGAGATAGCCAGACCTCCAGGGGGCAAGATGGGTGAGGACCGGGTCCCTGGGAGACGGAAGCTAGAGACTGGACTCTGTGGCCTTGGGGAGGCGGAGACTGAAGTCCAGTCTCACCCTGTGGAGGAAGAGGCTAAGAGCCTGGATTCCTGGGTCTGAGAGAGGTCTTAAGACCGGGACTCCTGAGTCCAGAAAGTGGCGAGGGACCAGAACTCCAG
Seq C2 exon
GAATCCTAGAGGCGACAACCACCCTTGCTACAACCCCTCATGCTTACAGCTCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000044132-4-5,5-5,6-5-3/3
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=0.053
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=WD(100=96.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
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:
CCTGCCAGTGCCATCCAATT
R:
GCTGTAAGCATGAGGGGTTGT
Band lengths:
200-460
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development