MmuINT1035544 @ mm10
Intron Retention
Gene
ENSMUSG00000031079 | Zfp300
Description
zinc finger protein 300 [Source:MGI Symbol;Acc:MGI:3045326]
Coordinates
chrX:21083908-21084355:-
Coord C1 exon
chrX:21084216-21084355
Coord A exon
chrX:21084001-21084215
Coord C2 exon
chrX:21083908-21084000
Length
215 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
TCTATAATTTCTCATTACAGGGT
3' ss Score
8.26
Exon sequences
Seq C1 exon
TATGCAATTACAGGAATCAGTGTCATTTGAGGATGTGTCTGTGGACTTCACTCAGGAAGAATGGAATCAACTGGACCCTATTCAGAGGAGCCTATACAGAGATGTGATGCTAGAGAACTATAGTCATCTTGTCTCTCTGG
Seq A exon
GTGAGGATGGCTTGTTGAGTAATTTATAGTTCCCCTAATAGTGTAACTTTATGTTTCTAAAGTTTCAATACCTTGGAATCTGGCGATCAAAGTTTTTATTTCCTCTTAAAGATGTTAATTGCCTATGTGAAATGTACCCTTATTAAAACCTACCTTACTAATTTTGAATGAATGTCACACAGAGTACCCAAGACTTCTATAATTTCTCATTACAG
Seq C2 exon
GGTATCCTATTACCAAACCAGAAGTGATCGCCTCTTTAGAGAAAGGAGTCCTTGGGATAATAAAGAGAGAAATTCCAAGTTCAAGTTGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031079:ENSMUST00000040667:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0135222=KRAB=WD(100=87.2)
A:
NA
C2:
PF0135222=KRAB=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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:
TGCAATTACAGGAATCAGTGTCA
R:
CTGTGCAACTTGAACTTGGAA
Band lengths:
231-446
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