MmuALTA1010536-2/2 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000022678 | Nde1
Description
nudE neurodevelopment protein 1 [Source:MGI Symbol;Acc:MGI:1914453]
Coordinates
chr16:14170338-14175439:+
Coord C1 exon
chr16:14170338-14170491
Coord A exon
chr16:14175291-14175296
Coord C2 exon
chr16:14175297-14175439
Length
6 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
ACTTCTGGTCTGTTCTGCAGGAG
3' ss Score
9.45
Exon sequences
Seq C1 exon
GGCAGAGAATACTCAGGAAGAACTCAGAGAGTTCCAGGAAGGAAGCCGAGAATACGAAGCTGAATTGGAGGCTCAGCTGCAGCAGATTGAAACCAGGAACCGGGACCTCTTGTCAGAGAATAACCGCCTTCGCATGGAGCTGGAGTCTGTGAAG
Seq A exon
GAGAAG
Seq C2 exon
TTTGAGATGCAGCACTCAGAGGGTTACCGGCAGATCTCAGCCTTGGAGGATGACCTGGCGCAGACGAAAGCCATTAAAGACCAACTGCAGAAATACATTAGGGAACTGGAACAAGCCAATGATGACCTGGAAAGAGCCAAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022678-5-12,5-11-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.840 A=NA C2=0.492
Domain overlap (PFAM):
C1:
PF079267=TPR_MLP1_2=FE(63.8=100),PF040127=PspA_IM30=FE(73.9=100),PF088265=DMPK_coil=FE(89.5=100),PF0017016=bZIP_1=PU(89.4=80.8),PF075586=Shugoshin_N=WD(100=55.8)
A:
NA
C2:
PF088265=DMPK_coil=PD(1.8=2.0)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAATAACCGCCTTCGCATGGA
R:
GGTCATCCTCCAAGGCTGAGA
Band lengths:
92-98
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