HsaINT0091037 @ hg19
Intron Retention
Gene
ENSG00000204001 | LCN8
Description
lipocalin 8 [Source:HGNC Symbol;Acc:27038]
Coordinates
chr9:139649864-139651044:-
Coord C1 exon
chr9:139650974-139651044
Coord A exon
chr9:139649969-139650973
Coord C2 exon
chr9:139649864-139649968
Length
1005 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
GCCATGGCCGGCTCTTGAAGGCC
3' ss Score
2.77
Exon sequences
Seq C1 exon
CTCAGGAAGCTGTGAGATAGAGAAGATCGTGGGCTCAGAAATAGACAGTACGGGAAAATTCGCTTTTCCTG
Seq A exon
GTAAGTGCAGTTGCCCTGTGATGGCAGGTGGAACCCGGCTGTGCACACAGCTAGGCCTTATTGTTCCCCATGCTGTTCCCTGCACTGTTCCCCATGCTGTTCCCTGCACTGTTCTCTGTGCTGTTCCCTGCACTGTTCCCCATGCTGTTCCCTGAACTATTCCCTGTGCTGTTCCCCATGTTGTTCCCTGCACTGCTCCCTGCACTGTTCCACATGCTGTTTCCTGCACTATTCCCCATGCTGTTCCCTGCACTTTTCTCTGCGCCATTCCCCATGCGTTCCCTGCACTGTTCCCTGCACTGTTCCCCATGCTGTTCCCTGCGCTGTTCCCCATGCTGTTCCCTGCACTGTTCCTCATGCTGTTCCCTGCGCTGTTCCACATGCTGTTCCCTGCGCTGTTCCCCATGCTGTTCCCTGCACTGTTCCCCATGCTGTTCCCTGCAATGCTCCCTGCACTGTTCCCCGCACTGCTCCCTGCACTGTTCCCCATGCTGTTTCCTGCACTATTCCCCATGCTGTTCCCTGCACTTTTCTCTGTGCCGTTCCCCATGCATTCCCTGCACTGTTCCCTGCACTGTTCCCCATGCTGTTCCCTGCAATGCTCCCTGCACTGTTCCCCGCACTGCTCCCTGCACTATTCCCCATGCTGTTCCCTGCACTTTTCTCTGTGCCGTTCCCCATGCATTCCCTGCACTGTTCCCTGCACTGTTCCCCATGCTGTTCCCTGCACTGTTCCCCATGCTGTTTCCTGCACCGTTCCCCATGCTGTTCCCTGCAGGGTTCCCTGCACTGTTCCCCATGCTGTTCCCTGCACATTTCATGCCCCAGACCTTCCCATTCTCCCACCAACACACTGGATCATCCTTCAAAAGCTTCTGTAGTGTCTCCAACCACTCAAGTGCTGGGACTGGGTGGGGGCAGGATGGAGTTAGACCCTGCAGACCCTGGCCTTCGAGGTCCGTCCCCCTCAGACGTCTCCCCCAACGCCATGGCCGGCTCTTGAAG
Seq C2 exon
GCCACAGAGAGATCCACGTGCTGGACACCGACTACGAGGGCTACGCCATCCTGCGGGTGTCCCTGATGTGGCGGGGCAGGAACTTTCGCGTCCTCAAGTACTTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204001-LCN8:NM_178469:3
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon 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
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)