MmuINT0130089 @ mm9
Intron Retention
Gene
ENSMUSG00000030359 | Pzp
Description
pregnancy zone protein [Source:MGI Symbol;Acc:MGI:87854]
Coordinates
chr6:128440541-128441273:-
Coord C1 exon
chr6:128441183-128441273
Coord A exon
chr6:128440698-128441182
Coord C2 exon
chr6:128440541-128440697
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-Pzp:NM_007376:25
Average complexity
IR-C
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
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: