MmuINT0105098 @ mm9
Intron Retention
Gene
ENSMUSG00000036062 | N28178
Description
expressed sequence N28178 [Source:MGI Symbol;Acc:MGI:2140712]
Coordinates
chr4:42946488-42946869:+
Coord C1 exon
chr4:42946488-42946539
Coord A exon
chr4:42946540-42946650
Coord C2 exon
chr4:42946651-42946869
Length
111 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
CTGTGGAGGGCTCTGTTCAGGAA
3' ss Score
1.17
Exon sequences
Seq C1 exon
AGCCATGGGGGTGTTGATGTCCAAGCGGCAGACAGTAGAGCAGGTGCAGAAG
Seq A exon
GTGAGCCTGGCTGTGTCAGCCTTCAAGGATGGGCTACGGGACAGGCCTTCCATTAGACGTGGGGGTGAGCTGCCAGGGTCCCGCCGTGGCACTGTGGAGGGCTCTGTTCAG
Seq C2 exon
GAAGTACAGGAGGAGAAGGAAGCAGAGGCGAGCGCCCCCGTGGTCCAGGAAGAGAGCAGTATCAACCGCGCAGCCTGGGAGCGGCTCCGAGATGGGCGTGGCGTCGAGCCTGAGGAGTTTGACAGGACCAGCCGATTCACGCCTCCTGCCTTCATCCGGCCCACGCGGAAGCTGGACGATGACAAACCTCCAGATATCTGCTTGGAACCCCGGGAGCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036062-N28178:NM_172690:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.703 A=NA C2=0.591
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGTCCAAGCGGCAGACAGTA
R:
CCGGGGTTCCAAGCAGATATC
Band lengths:
249-360
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: