MmuINT0177563 @ mm9
Intron Retention
Gene
ENSMUSG00000079173 | Zan
Description
zonadhesin [Source:MGI Symbol;Acc:MGI:106656]
Coordinates
chr5:137820032-137820305:-
Coord C1 exon
chr5:137820176-137820305
Coord A exon
chr5:137820076-137820175
Coord C2 exon
chr5:137820032-137820075
Length
100 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
CTGTTCCCCACTCCCTCTAGGAA
3' ss Score
11.65
Exon sequences
Seq C1 exon
AAGCATCCAGCTTAGTGGCCATCCTGCCGGGAGTGCTTGTGATGGTGTTAGTCCCTGTCTTACTGCCCAGAGTGTATGTTTACATGGCAACAAGAACAACCATGGGGAGGAGGAGGATGAAGAGGAAAGA
Seq A exon
GTAAGTCCTGGTCTGGGGCTAAGTGGGGGCGGGGTAGTCGATGTGTGGGACCTAACGCACACAAAAGCCGTGCTCCCCATCTGTTCCCCACTCCCTCTAG
Seq C2 exon
GAAGAAACTGTTGAGACAAAGTAGACTTAGGCTGGAGGATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079173-Zan:NM_011741:86
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.091 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATCCAGCTTAGTGGCCATCC
R:
TGCATCCTCCAGCCTAAGTCT
Band lengths:
170-270
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: