HsaALTA0005681-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000165802 | NELF
Description
nasal embryonic LHRH factor [Source:HGNC Symbol;Acc:29843]
Coordinates
chr9:140347514-140348272:-
Coord C1 exon
chr9:140348183-140348272
Coord A exon
chr9:140347629-140347632
Coord C2 exon
chr9:140347514-140347628
Length
4 bp
Sequences
Splice sites
5' ss Seq
ACAGTAGGT
5' ss Score
5.67
3' ss Seq
GTGACCCTCTTGCTTCCCAGGCA
3' ss Score
9.07
Exon sequences
Seq C1 exon
CGTTCGCTGAGCGGCGCGAGCGGAGCTTCAGCCGGTCCTGGAGCGACCCCACCCCCATGAAAGCCGACACTTCCCACGACTCCCGAGACA
Seq A exon
GCAG
Seq C2 exon
TGACCTGCAGAGCTCCCACTGCACGCTGGACGAGGCCTTCGAGGACCTGGACTGGGACACTGAGAAGGGCCTGGAGGCTGTGGCCTGCGACACCGAAGGCTTCGTGCCACCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165802-10-16,10-15-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.733 A=NA C2=0.102
Domain overlap (PFAM):
C1:
PF139501=Epimerase_Csub=PU(27.7=41.9)
A:
NA
C2:
PF139501=Epimerase_Csub=PD(70.2=78.6)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGAAAGCCGACACTTCCCAC
R:
TTCTCAGTGTCCCAGTCCAGG
Band lengths:
100-104
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)