MmuINT0179454 @ mm10
Intron Retention
Gene
ENSMUSG00000074500 | Zfp558
Description
zinc finger protein 558 [Source:MGI Symbol;Acc:MGI:1921681]
Coordinates
chr9:18457501-18459752:-
Coord C1 exon
chr9:18459657-18459752
Coord A exon
chr9:18457596-18459656
Coord C2 exon
chr9:18457501-18457595
Length
2061 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
TTCTTTTAAATTTGTTTCAGATT
3' ss Score
9.96
Exon sequences
Seq C1 exon
GGCAGCACCTTGATAAACCAAATCTGATATCCCAGTTGGAAGAAGAAGACAAAGTTATAAGAGAGGACAGAGGAATTATTCCAGGCATCCATCCAG
Seq A exon
GTAAGCACAGTTGCATCCTGGGAGGTGACTATGGCTGCAAAGCAGCAATGGAAGATGAAGTCATCTGCTCCTGACAAAGATGGATGTGAACACCTGCCACAAACTTGCACTGTTTTTGCTTTTCTCTCAACTCTGCTTTAATCATCTCATACTTTGTCCTGTAAAGAAAAAACAAAGATTTATGGTTTTCTTTGCTTTTAAATTTTAAGACACAGGCTGAAGGGATGGCTCAAGGGCTAAGGGCATGTATTGCTTTTGCAAAGGACCAGAATTCAGTTCCCAGCCACTACACAGGAAGACTCACACTGTAAGGGTCAGAAAAATCACTGAAGGAAAGCCCCAGACTCAGTTTATTCTGCAGAAGCAATTTGCATGCAATGGTCACCTCCTTTTAGAACGGGACACAGACAAAACTTTCATGTCCTTTTTATAACAGGGCTGCTTAATTGTTTCTGAGACTTCTAAAACTTAGGGCACATTCCAAGGGGCTATTGAAACTATTAATCAAAGGACATAAAGAAGATATGCACCTCAGAAGTGCTCAGGTGCAAAAACAGGAGATAAGATTTTGACTGAGTGACTTCAAGGGCTGCTAAGTTACAGTTCAAACTCTCCATGACACTTTAAGCTAGCAACAAGTAGTCAATGTCAAGCTGGATAATTGCATGTAGGCATTCTGTTACAACTTCCTATTCAATTTATGACCTGAATTCTTGTGCCAACTCTTTTTTTATTATTTTAATTCGTTATTTTACTTATTTACATTTAAATGTGATTCCCCCTTCCTGGTTTCCCCTCCACAACCCCCCATTCCTATTCCCTGTATGTCTATGACCCACCAACGCCCACCTCACCACCTTAGCATTCCCCTACACTGGAGTGTTGAGACTCCACAGGACCAAGGGCCTCCCCTCCCATTGATACTAGGTAAGGCAATCTTCTGCCACATATGCAGCTGGAACCATGGGTCCCTACATGTGCCAACTCTTAGTGAGCTTTTCTTTCATGAGAACAATTACTCTGAGAGTCATACTAGTGCTGATAGCAGATACAGGCCTCCCTCCCCTACTTTCCAGAGACCTAGAGCCTTAAAACCCCTGCTGAAATAAAACAAAAACTGCTTTAGCCTCTTGTTGTTTACTGTGAGGTGATAAACCTGAGACTTGTTGCCTCTCACATGCAGATCAGCTGCAGAAGCAGAGTACTTACAATGGTCTGTCAATTTTATTGTTAGAGTTAGGTAATCTAAGAACTCATTATTGGGTACCAGGATGCTCCGTGTGGACTGTATATCTTCATCCTGAATGACTAACCACAGGGTGGGCTGCCCAGCACAGATGGCCTATCCTGAGATAAAATATCTCCCATTCATGTGGCTACATTTTAAGCTGTTCCTCCAGTGATGGATTTTAGTATTTTGTTCCTAGACTTTGGGGTCTGCTGCTGGAGTGAATGGTTTATGGCCTAGTTTCTGAGTTGAGGGCAAAATGGGATAAAAAAGTCCCTACAACACCTAACTCCAACTCCAGAGGGATTCAACCCGTCTGTTTTTACAGACATCAACACACACATGCACACATAATCATGATTAAAAATAAAAAAGAAATTGTACATTTCAGTCACAGTTTTGATTCCTGATCATTTATTTTGTCTGTCTCTTATCAATCTCAAATACATGTCTAGAATATATTCATTGTTAAAGACTATTTTTATGATTTCTTTATTTTTAGTTTATGCACATTTGGTGTTTTGCCTATATGTATATCTGTGTGAGGGTACTGGGTCTTCTTGAGTTACAGACAGTTAGTTGCAAGCTGCCATGTGTGTGCTGGGGATTGAACCCACGTCCTCAAGATGATCAGCCAATGCTCTTAACCTCTGAGCCATCTCTCCAGTCCTAAAATATATTTTCTTTAACTAAATTTCCAGAACCAATTTCCCTGTCTTTTCAATCTTTATCAACTATTCTAATCCTTTCGAGTGTACCCTATATCATATATGCACCCCACTTTTTTTTCCTTCTATCTTCTACTGACTTGTTTTCTTTTAAATTTGTTTCAG
Seq C2 exon
ATTTGGAGAAGGTACTTAAAGCCAAATGGCTAACTCCTAAGAATCTTATTTTTAGTAAAGAACATGATAACGGTGGAAAAACAGTACAACTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000074500:ENSMUST00000159596:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.188
Domain overlap (PFAM):
C1:
PF0135222=KRAB=PD(0.1=0.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion 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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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