MmuINT0179449 @ mm9
Intron Retention
Gene
ENSMUSG00000074500 | Zfp558
Description
zinc finger protein 558 [Source:MGI Symbol;Acc:MGI:1921681]
Coordinates
chr9:18277330-18278003:-
Coord C1 exon
chr9:18277798-18278003
Coord A exon
chr9:18277439-18277797
Coord C2 exon
chr9:18277330-18277438
Length
359 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCGT
5' ss Score
9.49
3' ss Seq
CTTTGTGCCTTATTTTCCAGACA
3' ss Score
10.07
Exon sequences
Seq C1 exon
CGCCAGCCGGGAGCGCCCTCTGCCTAGTGGCCCTGGACTCCTGCTACCTCCCGAAAGCCCCAGGCTGCTTCCGCAGCCAGCGATAAAACCCGAGCTCTTCCAGCTCGCAGCCCTGGGAATGCTTTTTGTTCTCACAGAGGGGGGCGTGGCAGGCGAGCTGAGGGATGGTCAGCCAGCGGGTCCTGTTCTATCTCCTGAGCTGCAAG
Seq A exon
GTGCGTTCAGGGCGAATTAGCACATGTGCTGAGGGTGGAAATCCTTCCAGCTCTGTGAAGTTCATTCAGCCCCATCACCTTTAGGACCTCTACGTTTACTGCACGTGGAAATCACCAAAAGAGCTCTCTCTAGTCAATACATTGAGCAATTGAATAGACACATCATTCCAGCTTCTGCTGAGTTTGTGCCTGCATAGATATTAGGTAATTCCTTTTACACAGCCAAAACCTGGGCTATTATTACACGTTAACTGTGTAGATACACGTGGCGAGGGGCAATGAAAGGTTTTGTTTTTTTCTGTCACAGTTTGAATGCTTTCCATAAAAGGACTCATCAATCTTTGTGCCTTATTTTCCAG
Seq C2 exon
ACAAGAAAAACATCATGCAAACTCAAACTTGTGTTGGACCCTCAATGTTGTGTTGAAAACGCCTGAATGTCCACCTGCCCTCATTAATCTATTAATTTCATGTAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000074500-Zfp558:NM_028935:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGCGCCCTCTGCCTAG
R:
AATTAATAGATTAATGAGGGCAGGTG
Band lengths:
294-653
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: