MmuINT1035569 @ mm10
Intron Retention
Gene
ENSMUSG00000044807 | Zfp354c
Description
zinc finger protein 354C [Source:MGI Symbol;Acc:MGI:1353621]
Coordinates
chr11:50817119-50817935:-
Coord C1 exon
chr11:50817809-50817935
Coord A exon
chr11:50817212-50817808
Coord C2 exon
chr11:50817119-50817211
Length
597 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGA
5' ss Score
8.91
3' ss Seq
ATTCTCTTTCCCATGAGCAGGGT
3' ss Score
5.88
Exon sequences
Seq C1 exon
GAGCCTGTGACCTTCAGGGATGTGGCCGTGTCCTTCAGCCAGGATGAGTGGTTGCACCTGGACCCTGCTCAGAGAAGCCTGTACCGAGAGGTGATGCTGGAGAACTACAGCAACCTGGCCTCGCTGG
Seq A exon
GTAAGAGGCTTGCTGGGTAAGGGGTTAAGACTCTGCCGTGGAAGCACGTGACCCCTACCTGCTACCTGGCTTTGCCGGGAAAGGGTTTTTTCTCTAATGAACAGTCCAGTAGAAGATATCTTGAAGCTGCTTCTTTGGCTCAGAATCCTCTGTTTTCCATTCCATTATGCTGCAGAGAAAAATCAAATCTCTGTGGAGTTGCAAGTTCACTTTTTCTCTTGACATCTTTTGTGTTCCTGACTTTCTTTGCCCTTCCTTGTACCCTACCGTCAGTCTGTGTACTGCCTGGGGCCAGTGAGTAAATCCCAGTTCAGAATCTGAACTTCGTAGAAGGCATTTAGATGTTAAACACTGTACAGGAATGTCCTGTCTGAGAGAAGTCTATTTCTAGGACCGTGCGTTAATTTTGAGTTGGTCCTTCCTTCTTGCTCTATGCCCTAAATCTCCAGTGTCCCCCTGGGAAGTGAGTTACCTGTGTGTCCCACCTTGCAAGACTGAACTTCTCTGCTTTCTAGGTCAGGTGAGTAATATATGAAGTGGCTCTGGGATTGCTCTTCAGGCCGTTCATCCCAACTCCATTCTCTTTCCCATGAGCAG
Seq C2 exon
GGTTTCAGGCTTCAATACCTCCTGTGATTGGCAAGCTGCAAAAAGGGCAAGATCCCTGCATGGAAAGAGAAGCCCCTGAAGACACCTGCCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000044807:ENSMUST00000109135:3
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=0.406
Domain overlap (PFAM):
C1:
PF0135222=KRAB=WD(100=95.3)
A:
NA
C2:
PF0135222=KRAB=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTGACCTTCAGGGATGTGG
R:
CTAGGCAGGTGTCTTCAGGGG
Band lengths:
216-813
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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