MmuINT0180731 @ mm9
Intron Retention
Gene
ENSMUSG00000004948 | Zp3
Description
zona pellucida glycoprotein 3 [Source:MGI Symbol;Acc:MGI:99215]
Coordinates
chr5:136458509-136460135:+
Coord C1 exon
chr5:136458509-136458627
Coord A exon
chr5:136458628-136460031
Coord C2 exon
chr5:136460032-136460135
Length
1404 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
AGCTGGAGTTTTCCCCACAGGCA
3' ss Score
6.48
Exon sequences
Seq C1 exon
ATGACGAAAGATGCCCTGGTGTACAGCACCTTCCTACTCCACGACCCTCGCCCTGTGAGTGGCCTGTCCATCCTCAGGACTAACCGTGTGGAGGTACCCATTGAGTGCCGATACCCCAG
Seq A exon
GTCAGTGAGAGTTGTGCTGGCTGGCTTCCTGGATTTGGATATGGGTGCCTGCAAGCAGGATGTATGCTCTGACAGGGACAATGCTCTTTTTTTTTTTTTGGCAGCTGTGATGATGATTGTCCCATGTGTGAATGGTTAGGCAGCCTGCTGGGGCAAAGTCTGAGGCCAGGTCTGGATTAGGGACCAATTGCCTTTTGGAGGAGGAGAGAGATGAAGTTGAGGCAGGATTCTATGAAGCCCAGGCTCAAATTCGGATCTTTCTGCCTCCACCCTCCTAAATGCTGAGTTATAGTGTATAGGCTAGCCGATCTGGCTTTGTTCCGTGTTTTCACAGGATGACCTGGAATTGTGTATCCTAGCTGGCCTTGAACTTGGTGATATATACCTCAACCTCTCAAGTGCTGGGATTAAAGGTATTCACCACCACTGCCTGGCTCAGACAGCTTCTTAGGTGGATTCTATAGATGACAATCTCTTGTCACAGTGTTGCCTGCCTGTATTATAGTCTGGCCATAATTCTGCCCTCACTGTGTGTCTCAGTCTCCCCTGCTCTGGGATTACAGGTATGGGGTCATCCTCTTGGACATCCTTAGACATCCTCTTGGGGCTCTAGCCTGGGATACTTCATTGTGTCTGGTTGTTCTTTTTAATGCTTGGTTTTTGAGGCTGTCTTAACTATGTAGACAGAGCTGGCCTCATACTCGGTGATTTCCCTGCCTCTGCCTTTCGGGAGTGCTGGGATGAGAGGCCTGTACCACAATTATCCAGGGGTAGGACTTTTGGTTTTGTTCACTGGTATTTTTTTTTTTTTGGACAGGGTTTCACTGTCTATACTTTATGCTTGGTTAGCCTGGCATTTGCTTTGTAGATCAGGGTGGCTTTGAACTTATGATCCTCCTGCTTGGACCTTCTGAGTGCTGGGACTGCAAGGCATGCATTGCCACACATAGTCTATGATGTGCCAGGGATGGAATGTACACCAGGCAAGCACTCTGTCAACTATGTCCCCAGCCTGCCCTTTTTGAAATGGAGTCAGAATGGAGTATTCCTGTTGTCTTGCCTCAGCCTCCCCAGAGCTGCGTGGTAACAGCCATGCCACTCTATGGCTTCTGGCTTCTGGTTGCCTTTCACCAGGGCCTAAGTTGATAGAGACCAGACTTCAGCTTACTAGTGGAGCTTCTGCCTTCAGCCCTGTCTATCCGTGCTTCGGTGTCTGTCCCCATGGTTGGGACGTCTTCCTGCTGTCAAGTGTAGGCACTCAGGGGGTTAAGGAACCAGCCCAGCCTTTGGGGACCTTGGCTACTGAGTTTATCCATCTCTGAGATCTCTGTAATAGGGTAGGGATATGATTGCACACTGCCCCGGGATGGGTTTATATGGAAACAGCTGGAGTTTTCCCCACAG
Seq C2 exon
GCAGGGCAATGTGAGCAGCCACCCTATCCAGCCCACCTGGGTTCCCTTCAGAGCCACTGTGTCCTCAGAGGAGAAACTGGCTTTCTCTCTTCGCCTGATGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004948-Zp3:NM_011776:2
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:
PF0010018=Zona_pellucida=FE(15.0=100)
A:
NA
C2:
PF0010018=Zona_pellucida=FE(13.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGACGAAAGATGCCCTGGTG
R:
CCTCCATCAGGCGAAGAGAGA
Band lengths:
223-1627
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: