BtaALTA0016678-1/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000020895 | LOXL4
Description
Bos taurus lysyl oxidase-like 4 (LOXL4), mRNA. [Source:RefSeq mRNA;Acc:NM_174384]
Coordinates
chr26:19212845-19214150:-
Coord C1 exon
chr26:19213931-19214150
Coord A exon
NA
Coord C2 exon
chr26:19212845-19213028
Length
0 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
3' ss Seq
GCCGGGTGTTCTCCCAGCAGGAG
3' ss Score
7.24
Exon sequences
Seq C1 exon
ACTGAAGAGCCTAACGAAGAAGAATTCCTTCTGGATCCACCGTGTCAACTGCCTGGGCACAGAGCCCCACATGGCCAACTGCCAGGTGCAGGTGGCGCCAGCCCAGGGCAAGCTGCGGCCAGCCTGCCCGGGTGGCATGCATGCTGTGGTCAGCTGTGTGGCAGGGCCCCGCTTCCGTCCTCCGAAGGCGAAGCCAGGGCGCAAGGAGTCCAGGGCAGAG
Seq A exon
NA
Seq C2 exon
GAGATGAAGGTGCGCCTCCGCTCGGGGGCCCAGGTGGGCGAGGGCCGGGTGGAGGTGCTCATGAACCGCCAGTGGGGCACCGTCTGTGACCATGGATGGAACCTCATCTCCGCAAGCGTCGTGTGCCGCCAACTCGGCTTTGGCTCTGCTCGGGAGGCCCTCTTTGGGGCCCAGCTGGGCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020895-3-4,3-3-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.311 A=NA C2=0.129
Domain overlap (PFAM):
C1:
PF0053013=SRCR=PD(82.8=71.6)
A:
NA
C2:
PF0053013=SRCR=PU(56.1=88.7)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
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:
GCAAGGAGTCCAGGGCAGAG
R:
CACTGGCGGTTCATGAGCAC
Band lengths:
94-97
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development