MmuINT0130089 @ mm10
Intron Retention
Gene
ENSMUSG00000030359 | Pzp
Description
pregnancy zone protein [Source:MGI Symbol;Acc:MGI:87854]
Coordinates
chr6:128490523-128491255:-
Coord C1 exon
chr6:128491165-128491255
Coord A exon
chr6:128490680-128491164
Coord C2 exon
chr6:128490523-128490679
Length
485 bp
Sequences
Splice sites
5' ss Seq
TTGGTAATA
5' ss Score
4.19
3' ss Seq
ATCTTTTTTCTGTTGGACAGGCT
3' ss Score
7.11
Exon sequences
Seq C1 exon
GGTACCAGAGGCAGCTGAACTATCAGCACAGTGATGGCTCGTACAGCACATTCGGGAACCATGGTGGTGGCAACACTCCGGGAAATACTTG
Seq A exon
GTAATATGAAGCTGTGTCTTCCTGCTCTGCTGATCCGAGGCTGCTTCGGGAGTCTAGAAATAGCTGTTCTCTTGCACCTGGGATTCTTTTCCAGAAAATTTACTCATTATTAAAACTCCAAATGTTAATCCTACTGATCCCTACAAACCCGCCTACTCCCCCAGCACAGCTGATAACAGTGAAATCAAAGAGGCAGAGGTGTAAGGCAGGAAGTGCAGTTGTTCACAGCGATAGGAACGAGTTCTCATTGCCCTTTGGAAAAGTCAGGGAAAGAGAGGGTGTGCAGTTTTGATGGGCATGCAGTTTTGATGGGAGGGTGCTATAACAGTTCAAAAAAAAATATCTATTCTACTAAAGACCAAAGGAATGACACTATCAACTGATACCCCCAAAATGAGCCCTGCTGAACCGTGTCCACAGGCAGCCCGTAGTGAGCTTTAAAAGTAATGTTGCCCTGCTATCTCCATCTTTTTTCTGTTGGACAG
Seq C2 exon
GCTCACTGCGTTTGTGCTCAAGGCCTTTGCTCAAGCTCAGTCGCACATCTTTATAGAGAAGACACACATCACAAATGCTTTCAACTGGCTCTCCATGAAACAAAAGGAGAATGGCTGTTTCCAACAGTCTGGATATCTGCTTAACAATGCGATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030359:ENSMUST00000112132:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.161 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF076789=A2M_comp=FE(11.4=100)
A:
NA
C2:
PF076789=A2M_comp=FE(19.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTACCAGAGGCAGCTGAACT
R:
CTTCATCGCATTGTTAAGCAGA
Band lengths:
248-733
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