MmuINT0090290 @ mm10
Intron Retention
Gene
ENSMUSG00000036449 | Lcn8
Description
lipocalin 8 [Source:MGI Symbol;Acc:MGI:2135945]
Coordinates
chr2:25655299-25655507:+
Coord C1 exon
chr2:25655299-25655388
Coord A exon
chr2:25655389-25655481
Coord C2 exon
chr2:25655482-25655507
Length
93 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
AATGCTGTTCCATCATGCAGGGA
3' ss Score
7.73
Exon sequences
Seq C1 exon
CTCGGAGCCTTGAGAACGAGGATGAGCCAGGCTTCTGGCTGTTCCGGGAAATGACAGCAGACCAAGGCCTTTACATGTTGGCCCGACATG
Seq A exon
GTGAGTATAGCATCTTGGGGAGGATGCTGTACCAGGCTCCTGTGATGGGGTCTGATGCCCTCCTGACTCTACTAATGCTGTTCCATCATGCAG
Seq C2 exon
GGAGGTGTGCTGAGCTCTTGAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036449:ENSMUST00000038482:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006118=Lipocalin=PD(19.7=80.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
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:
GGAGCCTTGAGAACGAGGATG
R:
CTTTCAAGAGCTCAGCACACCT
Band lengths:
111-204
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types