MmuALTD1013471-2/2 @ mm10
Alternative 5'ss
Gene
ENSMUSG00000026943 | Lcn12
Description
lipocalin 12 [Source:MGI Symbol;Acc:MGI:1924951]
Coordinates
chr2:25492431-25493324:-
Coord C1 exon
chr2:25493242-25493324
Coord A exon
chr2:25493222-25493241
Coord C2 exon
chr2:25492431-25492507
Length
20 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
CCTGCCTATCCCTCCCACAGGGG
3' ss Score
11.51
Exon sequences
Seq C1 exon
ACAACACCTTCAGGAGAGAGCACCGGGCCTTGCTGAATTTCTTCACTACATTGTTTGAGCTGAAAGAGAAAAGTCAGTTTCAG
Seq A exon
GTGACCAACTCCATGACTCG
Seq C2 exon
GGGCAAGCACTGCAACACTTGGTCCTATACCCTGATCCCAGCAACCAAGCCTGGGCAATTCACCAGGGACAACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026943-4-6,5-6-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.259
Domain overlap (PFAM):
C1:
PF0006118=Lipocalin=PU(30.1=95.7)
A:
NA
C2:
PF0006118=Lipocalin=FE(17.8=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
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:
CCGGGCCTTGCTGAATTTCTT
R:
TGGTTGCTGGGATCAGGGTAT
Band lengths:
108-128
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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