MmuINT0107693 @ mm9
Intron Retention
Gene
ENSMUSG00000006476 | Nelf
Description
nasal embryonic LHRH factor [Source:MGI Symbol;Acc:MGI:1861755]
Coordinates
chr2:24912621-24913841:+
Coord C1 exon
chr2:24912621-24912696
Coord A exon
chr2:24912697-24913772
Coord C2 exon
chr2:24913773-24913841
Length
1076 bp
Sequences
Splice sites
5' ss Seq
AGCGTGAGT
5' ss Score
8.2
3' ss Seq
GACTTGCGGCGGTTTCTCAGGGT
3' ss Score
5.35
Exon sequences
Seq C1 exon
ATGATGTCCCCATCCGTACCTGGTTCCCCAAGGAAAACCTTTTCAGCTTCCAGACGGCAACCACAACTATGCAAGC
Seq A exon
GTGAGTTCGGTGTCCACTGCCAAGAGCCCAGGGCTGGGTTGTCTCTTCCTAGGGCTCAGGAAGGACTGACAACTGTTGCCTGGACTCTGGCTCAGCCTAGGGTTTTTGTGAACGGCTGCATGTGCCACATTGTGCAGGGTCTGCGGGTGGGCCAAGCTGAGGCTCTGCACCCCAGCAGGCAGGCTGCCTGCTCCCTCAGGCCTCATCCGACCTCTGCTTCTCCCTACCCCTTTCCTCACTTACATTCCCTCATGGGCATTCCCTGTATTCAGACTACCCACTTAGTTGTGGCCTTTTATCTTTGTTTTTGCCAGAGGACCTGACCCAGAGTTGCAGCTGATAGCACCATCACTAAGTGGTTTTGGGTGGGGGTGGGGGTTCTAGTCCTCATGTGTATCCTGAACTCCACTGTCAGGCTGCTTCTGTGTGACAGGTGACTGTTACCAGGGTCTGCTCTTCTTTACCTGATAGGCATCTAGATTTTCCTCCCTAGGACATGCCTTTGAAGCAGAGTCCCTCACCAGAATAGTCCTCCCCCGGCCGCAACTGCGATGGCAAAAGTGCACAGGGCACAGGCAAGCTTCTGTAGGACCAAACCCCAACCTTGCCTGGCTAAAACTCAGCACCTAGTAGTATGGGCCAGTGCCTCAGCCTCGGTGCCCTTGAGTCCAGTGGACATCCCGATGGGAGGAAACTACCTCCAGGGGATCTGGGGGGCTAAAGGAAGACAGAGATCCACACTCACGGTGTCCTCTTTCTCTTGCTGCCTCTTGACACTGTGGCTTCAGCATCTCGTAAGTATGCCATGCCGTGTGCACTTAGGGGCACAACCATTGTCCTGGGGGCCCTCCCACCCTTGGACAGAATTCTGCAGGTCAGGGATCCTGGGCCTGGGCAGTGAGTAGTGCTAAGCTCCCATTAGTCCAGACTCCTGTGGACAACTAGGCTGCAGCAGGACCTGCTGGGAGCTGGGCCTGGGATGCCCCTCTGGGCCCCCGTGCTTGTGCCTCTGTCTCCACGTCTGTGTCCCTCCTGCCTTCAGCCAAGGGCAGTGCTGACTTGCGGCGGTTTCTCAG
Seq C2 exon
GGTATTCAGGGGCTACGCGGAGAGGAAGCGTCGGAAACGGGAGAATGATTCCGCGTCTGTAATCCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006476-Nelf:NM_001177654:4
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.045 A=NA C2=0.646
Domain overlap (PFAM):
C1:
PF0061222=IQ=PU(42.1=30.8)
A:
NA
C2:
PF0061222=IQ=PD(52.6=41.7)
Main Inclusion Isoform:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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: