MmuINT0180733 @ mm10
Intron Retention
Gene
ENSMUSG00000004948 | Zp3
Description
zona pellucida glycoprotein 3 [Source:MGI Symbol;Acc:MGI:99215]
Coordinates
chr5:135984348-135985662:+
Coord C1 exon
chr5:135984348-135984531
Coord A exon
chr5:135984532-135985544
Coord C2 exon
chr5:135985545-135985662
Length
1013 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGG
5' ss Score
8.48
3' ss Seq
TTTACTTCTTCCCTTCCAAGTTG
3' ss Score
7.81
Exon sequences
Seq C1 exon
AGAACTGGAATACTGAGAAATCGGCTCCCACCTTCCACCTGGGAGAGGTAGCCCACCTCCAGGCAGAAGTCCAGACTGGAAGCCACCTGCCGCTGCAGCTGTTTGTGGACCACTGCGTGGCCACGCCTTCACCTTTGCCAGACCCGAACTCCTCCCCCTATCACTTCATCGTGGACTTCCACGG
Seq A exon
GTGAGGCCTGGCCTGCTTTCTTAGGGAGTCATTTCGTTCTCCTTTGGTTTAAGTATCTTATTAGCATACATTAACAAATGAATCGGGTGTGTTATGACACTTTCATATGTGTGCATTTTGGGCAGATTCACCCTCTTTATCTCTTTTCCTTGCTCTCCAGTTGATTCTTTCTCTTCACAAAGTTTCTTCTACATTGTCCAAAAAAAAAAAAAAAAAAAAAAAAAAAATCCTCGTCTCAGTCAGTGTTGGGATCACAAGGATGAGCCACTATGTCTGGCGTGACTGCTAATGAGCATGACACAACTTGGAAAGAGGGAGCCTTTCTGCATTACTAACGGACATAGGAGGAGCCAGCTTACTGAAGCAGGTAATAGAGAGGCTGCCTCAGCAGTTCCCAGCACTGGCTGCTCCTCTGGAGGACCAGGGTTCAATCCCCAGACAGCTCACAACTGTCCGTAACTCCAGTTCCAGGGGCTCCAACACACACATAGGCAAAACACCAATGAACAAAAAGTAAAATGATTTTTAAAATGTAACTTATGCAAGCCTTAGCTGCTTTCCTTCTGGTCTGTCTGCACTTCAGTTCCTGATCTCGGTAACTTGAGTTTCCTACCTTGGTTTCTTTTATTTTTTTAATTTTTTAATTTTATTTATTTATTTTTGGTTTTTCGAGGCAGGGTTTCTCTGTGTAGCCCTGGCTGTCCTGGAACTTACTTTGTAGACCAGGCTGGCCTCGAACTCAGAAATCCGCCTGCCTCTGCCTCCCAAATGCTGGGATTAAAGACATGCATTATCACCAGTCAACTGCTATTGGTCATTTTTTGTTTGTTTGTTTTTGTTTTGTTTTTTTCGAGATGGGGTTCCTCCGTACAGCCCTGGCTGTCCTGGAACTCAGTTTTATGGGTCAACTTTTAAATCACAGCAATGGAAAGCAAACTAAGACACCTGGCTTCCAGTCCCCATTGGTAATGAGATAGCCTTAGCTGTTTATTTTTTACTTCTTCCCTTCCAAG
Seq C2 exon
TTGCCTTGTGGATGGTCTATCTGAGAGCTTTTCGGCATTTCAAGTCCCCAGACCCCGGCCAGAGACTCTCCAGTTCACGGTGGATGTATTCCATTTTGCCAACAGCTCCAGAAATACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004948:ENSMUST00000005073:4
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=0.000
Domain overlap (PFAM):
C1:
PF0010018=Zona_pellucida=FE(23.5=100)
A:
NA
C2:
PF0010018=Zona_pellucida=FE(15.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAACTGGAATACTGAGAAATCGGC
R:
CGTATTTCTGGAGCTGTTGGCA
Band lengths:
302-1315
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