MmuINT0090271 @ mm9
Intron Retention
Gene
ENSMUSG00000026919 | Lcn4
Description
lipocalin 4 [Source:MGI Symbol;Acc:MGI:102668]
Coordinates
chr2:26523857-26524186:-
Coord C1 exon
chr2:26524085-26524186
Coord A exon
chr2:26523884-26524084
Coord C2 exon
chr2:26523857-26523883
Length
201 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGA
5' ss Score
7.83
3' ss Seq
TTTTTTCCTTGCTTTTACAGATC
3' ss Score
13.12
Exon sequences
Seq C1 exon
GAAAGTATCCGGAAGAAAACCAGGATACCTTGGAAGTATTTAAGGAATTCATACAGCATAAAGGATTTCTCCAAGAAAAAATCGGTGTGCCTGAACAGAGGG
Seq A exon
GTAAGAGGATGCTCTGTTTAACTTCTCCTCACGGCCCCTTATTTCCCCCATGGTACAGGGAATCTTGTGTAACCATGTGTCTTCCTTTACAAGCAGGATATTTTTTGTGATCTTAGTCATTGAGCCATCCAAGCTGCAGGTGCAGTCTGGGTCTTCAACCTGGACACTCTTCTATTTGATTTTTTTTCCTTGCTTTTACAG
Seq C2 exon
ATCGGTGTATTCCCATACATGACAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026919-Lcn4:NM_010695:5
Average complexity
IR-S
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(24.6=100)
A:
NA
C2:
PF0006118=Lipocalin=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
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:
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
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: