HsaALTA1055690-4/5 @ hg38
Alternative 3'ss
Gene
ENSG00000204001 | LCN8
Description
lipocalin 8 [Source:HGNC Symbol;Acc:HGNC:27038]
Coordinates
chr9:136755412-136756592:-
Coord C1 exon
chr9:136756522-136756592
Coord A exon
chr9:136755517-136755649
Coord C2 exon
chr9:136755412-136755516
Length
133 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
ACTGGATCATCCTTCAAAAGCTT
3' ss Score
1.95
Exon sequences
Seq C1 exon
CTCAGGAAGCTGTGAGATAGAGAAGATCGTGGGCTCAGAAATAGACAGTACGGGAAAATTCGCTTTTCCTG
Seq A exon
CTTCTGTAGTGTCTCCAACCACTCAAGTGCTGGGACTGGGTGGGGGCAGGATGGAGTTAGACCCTGCAGACCCTGGCCTTCGAGGTCCGTCCCCCTCAGACGTCTCCCCCAACGCCATGGCCGGCTCTTGAAG
Seq C2 exon
GCCACAGAGAGATCCACGTGCTGGACACCGACTACGAGGGCTACGCCATCCTGCGGGTGTCCCTGATGTGGCGGGGCAGGAACTTTCGCGTCCTCAAGTACTTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204001-4-11,4-10,4-9,4-8,4-7-4/5
Average complexity
Alt3
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:
PF0006118=Lipocalin=FE(19.0=100)
A:
NA
C2:
PF0006118=Lipocalin=FE(27.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
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:
CTCAGGAAGCTGTGAGATAGAGA
R:
ACTTGAGGACGCGAAAGTTCC
Band lengths:
170-303
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains