MmuINT0179444 @ mm10
Intron Retention
Gene
ENSMUSG00000078796 | Zfp541
Description
zinc finger protein 541 [Source:MGI Symbol;Acc:MGI:3647699]
Coordinates
chr7:16089797-16090502:+
Coord C1 exon
chr7:16089797-16089860
Coord A exon
chr7:16089861-16090359
Coord C2 exon
chr7:16090360-16090502
Length
499 bp
Sequences
Splice sites
5' ss Seq
ACCGTGAGT
5' ss Score
9.4
3' ss Seq
TGTGTATGGCCTTGTTTCAGACA
3' ss Score
7.12
Exon sequences
Seq C1 exon
ACCAAGTGGACAGCTCCTTTGGCATCTGTGTGGTGAAGGATGACACTAAAATCAGCATCGAACC
Seq A exon
GTGAGTTGGAACCCTTAGTGCCCAAGTCCTTCTAGTGAGGGTGCTTCCATCAGCCTGACCTTCCAGAGTCTCCTTTCCCAGGACTGTCTTCCAAGGGAGGGCAGACCAGACGGAGATATTCCATATAGAAGCTCTGGGTTTCTCCAATAGTAGGTCAAGAGTTTCTGCTGTTATTTCTGTAACACAGATGAGCATGGGGTGGGACAGAATCTCTACTGTGGACCTGGGTTTCTGGGCAGAAGTGGTGAAAGCATAGTACAGGAGGCAAGGGCATTTGTGGGTTGGGACTGGACACAGGTGGTCAGTGTCAGCACATAGAGTGTTCTGAAATGCCTGTGTCTGTCGGGTGATGAAGGTAATAAGCAGCCACCATGTCTGAGAAATGGCAGCAAACTGCTCTGAGCAGGCTGTGGCTGTGAGCAGAATGCATGGTACATCTCTACGGTCTCCTGGCTTAAGCAACTTTGCATCTCAATGTTTGTGTATGGCCTTGTTTCAG
Seq C2 exon
ACATATCAACGTAGGAAGCAGATTTCAGGCGGAGATCCCAGAACTGCAGGAGAGGCTGCTGGCCAGAGTGGATGAGAATGTAGCTTCTCTGGTCTGGAAGCCATGGGGAGATGTGATGACCAACCCAGAGACCCAGGACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000078796:ENSMUST00000209369:11
Average complexity
IR
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:
NO
A:
NA
C2:
PF0144819=ELM2=PU(79.3=93.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAAGTGGACAGCTCCTTTGG
R:
CTCTGTCCTGGGTCTCTGGG
Band lengths:
206-705
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