HsaALTD1004158-2/2 @ hg38
Alternative 5'ss
Gene
ENSG00000072864 | NDE1
Description
nudE neurodevelopment protein 1 [Source:HGNC Symbol;Acc:HGNC:17619]
Coordinates
chr16:15672690-15677949:+
Coord C1 exon
chr16:15672690-15672771
Coord A exon
chr16:15672772-15672971
Coord C2 exon
chr16:15677801-15677949
Length
200 bp
Sequences
Splice sites
5' ss Seq
GCTGTAAAT
5' ss Score
-0.19
3' ss Seq
GTGTCTGTGTTGTCCTTCAGGAG
3' ss Score
10.91
Exon sequences
Seq C1 exon
GTTCCGAGGAGATCTCTCAATCGCCAGTGCAGTCGGTGGAGCCCACTCGCTGCGTCCTCCTGGAGCCTGCGTTTGAATTTAG
Seq A exon
GTTAATGACTTAAGATCCTGTTTTATTTGGAGATGTTCCCAAATAAAGGGTGTGAGGCGATGAGAGCCACGCCTGGGAACAGGGCCTGGTCTGCCTCTACTTGCTGGGTGCAGATACTTCTCTGCTTACAGCCAGGAAATGGGGAGGGTGCTGCGGGCGGCAGCAGGGATGTGGTCCGCCCTCCTCATCCTTCCAACGCT
Seq C2 exon
GAGAAGTTTGAAGTGCAGCACTCTGAAGGCTACCGGCAGATCTCAGCCTTGGAGGATGACCTCGCGCAGACCAAAGCCATTAAAGACCAATTGCAGAAATACATCAGAGAGCTGGAGCAAGCAAATGACGACCTGGAAAGAGCCAAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000072864-15-40,16-40-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.260
Domain overlap (PFAM):
C1:
PF104734=CENP-F_leu_zip=PD(17.6=57.1),PF040127=PspA_IM30=PD(25.0=75.0),PF088265=DMPK_coil=PD(1.8=3.6)
A:
NA
C2:
PF040127=PspA_IM30=PD(18.4=29.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
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:
CCGAGGAGATCTCTCAATCGC
R:
CGCTTGGCTCTTTCCAGGTC
Band lengths:
228-428
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains