MmuINT0180735 @ mm10
Intron Retention
Gene
ENSMUSG00000004948 | Zp3
Description
zona pellucida glycoprotein 3 [Source:MGI Symbol;Acc:MGI:99215]
Coordinates
chr5:135987255-135987608:+
Coord C1 exon
chr5:135987255-135987346
Coord A exon
chr5:135987347-135987471
Coord C2 exon
chr5:135987472-135987608
Length
125 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
CTTTTTGTCTTGTTACTCAGTTG
3' ss Score
6.93
Exon sequences
Seq C1 exon
CTCTACATCACCTGCCATCTCAAAGTCGCGCCAGCTAACCAGATCCCCGATAAGCTCAACAAAGCCTGTTCGTTCAACAAGACTTCCCAGAG
Seq A exon
GTGAGGAGACCAGGTGCCTGTGTGTAGGCACCCGGGGGCTACTCAAATTGATGTCTTCAATTATACAATGGCAAACATCTTCCTGTCCTAGCTGAGCTAAGTAAGCTTTTTGTCTTGTTACTCAG
Seq C2 exon
TTGGTTGCCAGTAGAGGGTGATGCTGACATCTGTGATTGCTGCAGCCATGGCAACTGTAGTAATTCAAGCTCTTCACAGTTCCAGATCCATGGACCCCGCCAGTGGTCCAAGCTAGTTTCTCGAAACCGCAGGCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004948:ENSMUST00000005073:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.043
Domain overlap (PFAM):
C1:
PF0010018=Zona_pellucida=PD(9.6=80.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCTACATCACCTGCCATCTCA
R:
GTGCCTGCGGTTTCGAGAAA
Band lengths:
228-353
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types