MmuINT0179069 @ mm10
Intron Retention
Gene
ENSMUSG00000020364 | Zfp354a
Description
zinc finger protein 354A [Source:MGI Symbol;Acc:MGI:103172]
Coordinates
chr11:51060072-51060986:+
Coord C1 exon
chr11:51060072-51060154
Coord A exon
chr11:51060155-51060859
Coord C2 exon
chr11:51060860-51060986
Length
705 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
GAGTTGTCTGTCCCTCACAGGTG
3' ss Score
9.48
Exon sequences
Seq C1 exon
ATCCTCCCTCATCTTCACCCATCTTTGGAAGAAGAACCTTCAGAAAGAAGATGGCTCCTGAGCAATGGGAAGCGACATCTCAG
Seq A exon
GTAAGCACCTTGCCGGTTCATTTCGTAGCAGAAGGAGCGGATTTTGTTTGGTTTTCCTTCTGACAGTTATCCACGCAGTTCAGCCTTCACCGGGTTTCATCGCCCATGCCCTCCTTGGAGCAGTTGGTCCTCCCTCCGTGGGTGGTGGATTCTGTGGGGAGCACACCCCATGTTCACAGTTCCAGTCTTATGTATCTCTTGATAGACAGGCTATTGTTGCCTGGTGCCAGTCTGGTGTATGCCTACAAATTCCACAAGTAACTTGCCAGGTACCTGGGACAGAATACACATACGTACTTGAGAAAATTCCTTTTTTTTCTGGTCCTGCCTCCCGCACTTGTCTGTTTCATTCTCTGCCCTTACCAAAATTGGTTTTCTATTTTTTTCTTCTTTCTTCTTGACAATCCTTATGTTGTTCACCAAGCCTTCTCCAGTCTGTGGTGGTTGGTTGGTTGGTTGGTTGTTGTTGTTGTTTTTCCCACTTTATGGTTTTATCTTTTGCTTGTACAATTTCCATGAAAGTTTTTTTCTTATCGTGTATGTATGTATGATGTGGTGTGCATACATGTGTATATGCGTATTCTCATGTACTTGGTCACGTGTTTGGATGGCTGTATCTCTGTGTGAGGATATACATCTGCACATGTGTGTCAAAGCCTGAGGCTATAGGGTGGCTTCTCCCATGGAGTTGTCTGTCCCTCACAG
Seq C2 exon
GTGTCGTTGACATTTGAAGACGTGGCCGTGCTCTTTACCCGGGATGAGTGGAAGAAGCTGGTTCCCTCTCAGAGAAGCCTGTACCGTGAGGTGATGCTGGAGAACTACAGCAACCTGGCCTCGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020364:ENSMUST00000102766:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.182 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0135222=KRAB=WD(100=95.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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:
ATCCTCCCTCATCTTCACCCA
R:
CGAGGCCAGGTTGCTGTAGTT
Band lengths:
206-911
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