MmuINT0179455 @ mm10
Intron Retention
Gene
ENSMUSG00000074500 | Zfp558
Description
zinc finger protein 558 [Source:MGI Symbol;Acc:MGI:1921681]
Coordinates
chr9:18456801-18457595:-
Coord C1 exon
chr9:18457501-18457595
Coord A exon
chr9:18457053-18457500
Coord C2 exon
chr9:18456801-18457052
Length
448 bp
Sequences
Splice sites
5' ss Seq
GAGGTAATG
5' ss Score
8.73
3' ss Seq
TACCATTTATCTCATAACAGGAA
3' ss Score
7.56
Exon sequences
Seq C1 exon
ATTTGGAGAAGGTACTTAAAGCCAAATGGCTAACTCCTAAGAATCTTATTTTTAGTAAAGAACATGATAACGGTGGAAAAACAGTACAACTGGAG
Seq A exon
GTAATGATTCTGGGTTTGTTTGTTTGTTTTTTTCCATGTTAGAACAGATAGAAAACTCAAGAAGTTATTACAAACAGTGTCACTAAATCTTAAGGAAATGATGTCTCTGTGAAGATACTGTGAAACTATACTTTTAGAGAAAAGATTAAGCCAACTTTAAATATATTTCTTCACTGAGAGGTCCCACAAATTTGCATATCATTAAGTATGAATCAGGTGATCGGTATTTAACATAAGTGATCCTAAATTTTTCAGAAATTTTTTAGTATAAGGATTTATAGCCAAATGTCTGTGCCTTTGAGCAAGCTCAGAATAAGCAGAAGTCATATGTAAGCTCTGAAAAGAACCAAACTGTTTATTGTGTCATAGATTTTTCTGGGAGAGGGAATCTTATTATAGCATGGCATAATAATAATATAAATTATAGTTACCATTTATCTCATAACAG
Seq C2 exon
GAAAGAGGTCATCATGGAATGAAAGTCAATGAGTGCAATCAATGTTTTAAAGTCTTCAGCACAAAATCTAACCTTACTCAGCACAAGAGAATTCATACTGGAGAAAAACCATATGACTGTACCCAGTGTGGAAAATCCTTCCGCAGCAAATCTTATCTTACTGTTCACAGAAGAATCCATAATGGGGAAAAACCTTTTGAATGCAATCACTGTGGGAAAGCATTTAGCGATCCCTCATCCCTCAGACTTCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000074500:ENSMUST00000159596:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.188 A=NA C2=0.042
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=9.9),PF134651=zf-H2C2_2=WD(100=9.9),PF134651=zf-H2C2_2=WD(100=9.9),PF134651=zf-H2C2_2=WD(100=10.3),PF134651=zf-H2C2_2=WD(100=9.9),PF134651=zf-H2C2_2=WD(100=9.9),PF134651=zf-H2C2_2=WD(100=9.9),PF134651=zf-H2C2_2=WD(100=9.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAAATGGCTAACTCCTAAGAATCT
R:
ATGAAGTCTGAGGGATGAGGGA
Band lengths:
326-774
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