MmuINT0177560 @ mm9
Intron Retention
Gene
ENSMUSG00000079173 | Zan
Description
zonadhesin [Source:MGI Symbol;Acc:MGI:106656]
Coordinates
chr5:137823301-137823733:-
Coord C1 exon
chr5:137823534-137823733
Coord A exon
chr5:137823440-137823533
Coord C2 exon
chr5:137823301-137823439
Length
94 bp
Sequences
Splice sites
5' ss Seq
AAGGTCCGG
5' ss Score
3.7
3' ss Seq
CTTCACCTCCTCTCTTCCAGCTG
3' ss Score
10.27
Exon sequences
Seq C1 exon
CCATGACATGTCCTGCCAATACTGTGTACCAGCGCTGCATGACACCCTGCCCGGCGTCCTGTGCCAAATTTGTGACCCCCAAGGTCTGTGAAGGCCCCTGCGTGGAAGGCTGTGCCAGCCTCCCCGGCTACATTTACAGTGACACACAGAGCCTCCCAGTGACACACTGCGGCTGCACCGCCGATGGCATCTATTACAAG
Seq A exon
GTCCGGGTGGCATAGAGGCCTGGGAGCCCAGGTACAGAGAAGGGCACCTCGGGTGAATCTAGACCGGCTCCTGTCTTCACCTCCTCTCTTCCAG
Seq C2 exon
CTGGGTGACAGCTTTGTAACTAACGACTGCTCCCAGCACTGTACCTGTGCAAGCCAGGGGATCCTGCTGTGTGAGCCCTATGGCTGCAGAGCTGGGGAGTCCTGCATGGTGGCCAACTTTACTCGAGGCTGCTTCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079173-Zan:NM_011741:83
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0182612=TIL=WD(100=80.6),PF127142=TILa=PU(16.4=13.4)
A:
NA
C2:
PF127142=TILa=PD(80.0=93.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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:
TGCCAAATTTGTGACCCCCAA
R:
GCTGGGAGCAGTCGTTAGTTAC
Band lengths:
176-270
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: