MmuALTD1039808-2/4 @ mm10
Alternative 5'ss
Gene
ENSMUSG00000078580 | E430018J23Rik
Description
RIKEN cDNA E430018J23 gene [Source:MGI Symbol;Acc:MGI:2141981]
Coordinates
chr7:127393001-127393390:-
Coord C1 exon
chr7:127393290-127393390
Coord A exon
chr7:127393253-127393289
Coord C2 exon
chr7:127393001-127393114
Length
37 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGA
5' ss Score
6.04
3' ss Seq
TTTGCTATCTTTCCCTCCAGAAG
3' ss Score
10.61
Exon sequences
Seq C1 exon
TCCTTAAGCCTGGGACTGTGAGCTTCGCGGACGTGGCCGTGTACTTCTCCCCGGAGGAGTGGAGGTGTCTGCGGCCGGCGCAGAGAACCCTGTACCGAGAG
Seq A exon
GTGATGCGCGAGACCTATGGTCTCCTGGCCTCTCTGG
Seq C2 exon
AAGTCGGGGGCGACAAACCAGCGCTCATCTGCTGGGTGGAGGAAGAGTCCGAAGTGTGGGGACCCGGTGCCCAGGAGCCAGAGGTGGCCATGTGCAGGACAGAAGTCCACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000078580-0-0,1-0,2-0,3-0-2/4
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.098 A=NA C2=0.491
Domain overlap (PFAM):
C1:
PF0135222=KRAB=PU(93.1=55.1)
A:
NA
C2:
PF0135222=KRAB=PD(0.1=0.0)
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TAAGCCTGGGACTGTGAGCTT
R:
AGATGAGCGCTGGTTTGTCG
Band lengths:
127-164
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