MmuALTA0003039-2/2 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000038330 | C87499
Description
expressed sequence C87499 [Source:MGI Symbol;Acc:MGI:2140706]
Coordinates
chr4:88629202-88630139:-
Coord C1 exon
chr4:88629829-88630139
Coord A exon
chr4:88629356-88629472
Coord C2 exon
chr4:88629202-88629355
Length
117 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
3' ss Seq
GTCTCTGGGTTTGATTCTAGGCA
3' ss Score
7.16
Exon sequences
Seq C1 exon
CATGACTCTTTAGAAGAGGAAACAATGAATGCCTACTCCCCACCCACCCTCCTGCAGCTGGCAAGGCAGAAGCTACTGAGGGAGGAGGCCTTGGCCATTTCTGCTCTCAAGGACCTACCCAGAGAGCTGCTACCAGAGATGTTTGAGGAGGCCTTCACTGATGAATGTACAAAGACCTTAAGGGCCATGATACCTATGTGGCCCTTCCCATGCCTTCCTGTAGGAACGCTGATAAAGAACCCCAACCTGGAGACTTTGAAGGCTGTGCTTGAGGGACTAGATATACTGCTTGCACCAAAGGTTCGCTCCAG
Seq A exon
GCACAGGGAAAAGCAAAGTTTTGGAAGAAACAACTGAAGTATGAGGTATGGAAGAATACCAGACTGTAAAATGTGTCTTCTCTTATCTTCTGAAAATTCTACAAATTTCTCCCACAG
Seq C2 exon
TAGGTGCAAACTCAGAGTACTCAATTTGAGGAATGAGCACCATGAGTTTTGGAGGATATGGGCTGGATCCCATGAAGATGAATGCTTACCACAGTTGACACAGAAGCAGCCAGTGGAGAATAGTCCTGACTGTGGAGTGAAGAAACATTTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038330-3-3,3-2-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.061 A=NA C2=0.056
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
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:
GCCATGATACCTATGTGGCCC
R:
CACTGGCTGCTTCTGTGTCAA
Band lengths:
243-360
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