MmuINT0107696 @ mm9
Intron Retention
Gene
ENSMUSG00000006476 | Nelf
Description
nasal embryonic LHRH factor [Source:MGI Symbol;Acc:MGI:1861755]
Coordinates
chr2:24915125-24915783:+
Coord C1 exon
chr2:24915125-24915214
Coord A exon
chr2:24915215-24915658
Coord C2 exon
chr2:24915659-24915783
Length
444 bp
Sequences
Splice sites
5' ss Seq
ACAGTAGGT
5' ss Score
5.67
3' ss Seq
GTGACCCCTCCTGTCCCCAGGCA
3' ss Score
10.58
Exon sequences
Seq C1 exon
CGTTCGCTGAGCGTCGCGAACGGAGCTTCAGCCGGTCCTGGAGCGACCCCACCCCTATGAAAGCCGACACTTCCCACGACTCCCGAGACA
Seq A exon
GTAGGTGTCCAGGTGCAGGCTGGCCCACTTCCCTGACAAGTTCCCTTAGGCCCCATATCCCTGTCAGGGTCCCATGCCAGTACGGCTAGGCTTCTGCGCTTTTGCTCTCTGAGCCTCAGTTTACCTGTCTATGAGATGGAAGTACTTGGTATCCTATCTCTTAGGCTGGGTTAACTAATGGCTAAGCAGTGCTGACACTGGGCATCTGTAAGGTGGTACCCACTGTCTCTCAGGGCATACTTGGCCACAGGTGACACTTGTGTTGGGTCCCAGCTTCACATGTCTCTCCTCTTCCTATGTGGGGCTGCTTCCCACTGGTATCAGTGGCCTGGCTCTGCAGTTTGACTGTGACTGTGACCTTCATACTTACCCAAAGAACCTCCAGGACATGGTTGGGCTCTATGAGTGGTATGCCACTCTCCTGGTGACCCCTCCTGTCCCCAG
Seq C2 exon
GCAGTGACCTACAGAGCTCACACTGCACCCTGGATGAGGCTTGTGAGGACCTGGACTGGGACACAGAGAAAGGTCTGGAGGCCATGGCCTGCAACACCGAGGGCTTCTTGCCACCCAAGGTCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006476-Nelf:NM_001177654:7
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.790 A=NA C2=0.087
Domain overlap (PFAM):
C1:
PF139501=Epimerase_Csub=PU(28.3=41.9)
A:
NA
C2:
PF139501=Epimerase_Csub=PD(69.6=76.2)
Main Inclusion Isoform:
NA
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:
GTCGCGAACGGAGCTTCAG
R:
CATGACCTTGGGTGGCAAGAA
Band lengths:
203-647
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: