MmuINT0179431 @ mm9
Intron Retention
Gene
ENSMUSG00000078796 | Zfp541
Description
zinc finger protein 541 [Source:MGI Symbol;Acc:MGI:3647699]
Coordinates
chr7:16675709-16676260:+
Coord C1 exon
chr7:16675709-16675851
Coord A exon
chr7:16675852-16676156
Coord C2 exon
chr7:16676157-16676260
Length
305 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGCT
5' ss Score
1.4
3' ss Seq
CGGCTTTGCTGGGACCACAGTGA
3' ss Score
0.19
Exon sequences
Seq C1 exon
ACATATCAACGTAGGAAGCAGATTTCAGGCGGAGATCCCAGAACTGCAGGAGAGGCTGCTGGCCAGAGTGGATGAGAATGTAGCTTCTCTGGTCTGGAAGCCATGGGGAGATGTGATGACCAACCCAGAGACCCAGGACAGAG
Seq A exon
GTGGCTGAGGCTTTGAGTCAGATCCCAGGGCTCCTTCTTTCTTATCCAACCCAGGAAATGTACCCTCGGCCCAGCATCTCTCCCTCGTTGCATTGCCCTCCCCCACCTCTTACTTGCCAGTGCAGGTGCCAGGCCAGGGCTTCTATGGTTCCTCTTTGTTCCCCTTATTCAGACTGCCTCCACCTTGGGAATGTAAGGGAAAGGGAATTGACCAGAAGCCCCTGTGCTATGGGGAAGGCTAACTGTCTCATGTGCCTGACTTCATTTCTTCTTCCTAATGTTCTTCGGCTTTGCTGGGACCACAG
Seq C2 exon
TGATGGAGCTCTGCAATGTAGCATGCTCCAGTGTGATGCCAGGAGGGGGCACCAACCTGGAGCTTGCCCTGCACTGCCTGCATGATGCCCAGGGCAGTGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000078796-Zfp541:NM_001099277:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0144819=ELM2=PU(79.3=93.9)
A:
NA
C2:
PF0144819=ELM2=PD(19.0=31.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATATCAACGTAGGAAGCAGAT
R:
CAGGCAGTGCAGGGCAAG
Band lengths:
223-528
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: