HsaINT0112668 @ hg19
Intron Retention
Gene
ENSG00000165802 | NELF
Description
nasal embryonic LHRH factor [Source:HGNC Symbol;Acc:29843]
Coordinates
chr9:140347508-140348272:-
Coord C1 exon
chr9:140348183-140348272
Coord A exon
chr9:140347633-140348182
Coord C2 exon
chr9:140347508-140347632
Length
550 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
GTAGGTGCCCCGCACAGGCCCGCCCACCTTCCCCAGAGCCTCCCCTAGACCCCAGACCCCTGCTGGGGGTCCCCTGCCAGGGCCGCTGGGCTGCGCTTTTGCACTCCTGAATCTTGGTTTACCTGTTTGTGAGATGGGGACGCCCTCAGCATCTCCGATCGCAAAGGCGGGGCTAACAACGGCCGCGGCAGTGCTGGCCGGGGGCGCCTGTAGGGCCGTGCCCACCGCCACTCGCAAGAGGCCCTCAGGGGCAGGGGGCTGCGGTGCCCGCCCCCACTCCCTCCCAGGCGCCCGGCGGACTTGGCTGGAGCTGATGCCTGCACGCGCCTTCCACCGGCCTCGCACCAGGGTCTCCCTTCCCACATCAGGCCGCTGCCCAGTGGTGTCCACAGGCCTGTCCTGCCGGGCTGGCGGCGACCTCTGTATGGTCCTCCCACTTGCTTGGAGGACCCTCCGGGATGGGGCTTTCGGGCCCTGTGGGCCTTGGGGCCATGGCCAGGATAGGAGGTGCTGCCGGGCCTGCTGTCCTGGTGACCCTCTTGCTTCCCAG
Seq C2 exon
GCAGTGACCTGCAGAGCTCCCACTGCACGCTGGACGAGGCCTTCGAGGACCTGGACTGGGACACTGAGAAGGGCCTGGAGGCTGTGGCCTGCGACACCGAAGGCTTCGTGCCACCAAAGGTCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165802-NELF:NM_001130970:7
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
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)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGCTTCAGCCGGTCCT
R:
ATGACCTTTGGTGGCACGAAG
Band lengths:
193-743
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)