MmuINT1035567 @ mm10
Intron Retention
Gene
ENSMUSG00000020335 | Zfp354b
Description
zinc finger protein 354B [Source:MGI Symbol;Acc:MGI:1351476]
Coordinates
chr11:50929377-50930985:-
Coord C1 exon
chr11:50930901-50930985
Coord A exon
chr11:50929504-50930900
Coord C2 exon
chr11:50929377-50929503
Length
1397 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
GGAACGGCTTTCCCTCACAGGTG
3' ss Score
8.06
Exon sequences
Seq C1 exon
ATCGCATTTTTGGACACTGTACCCATCTTTGAGAAAAGCCCAGAAAGTGAGCATGGCTCCAGAGCAAAGGGAAGGGAAGTCTCAG
Seq A exon
GTGAGCGCATTGCCGTCTCAGTTCATGGCAGGAGTATTTTATATGGTTTTGGTTTTCCTTCCAGACTGAGGCTCTCCGCCCAGTAGACCCTTCACCAGGACTTGGTGCTCTTGGAGGAGCTGGTTGTCTAGGAAGCACACTGCACGCTCGCTCACAGTATATTGCGTTGCTGTTAGCTGATCCCGGTCTGTTGTGCTTACTACATTGACAGCGACATGCAGATGTCCGTTATCACTAGGGACACAGCTGGCGGAAGTCCTTTCTGGTCTGCTTCCCTCATGTTTATTTTTCTCAGCCCTCACCTGGATTGCCCATCTATTTCTTTTTGCCCTTAAGAATGCTTGCGGCGCTCCTCCATCCCGTGGTTCCCCTCCTATACTCTGTAGATCCTAGGTTTGGATTGTACCATTCTTGTGAAAACAACTACTCTTGACCTGCCATTTGGAGGAGCGGGAATATAGAGCTGCCCCCATCGAGGTGAGCTGCTGCGTGGACAGGGGAAAGCCATACTGCAGGGGACACAGTGTCAGGAGCCTCACTCTGAGAGCAAGGAGACGACTTATCAAGAAGCCATGAAGAGGGTTTCCTGGGATATTTGACAGAAAATTAGAAAGCACAGTGGGAGGCTCAAGACCGTTGATTTTTACCCTACCCCCTCTGTTACCATCTGTGGGCCTTAAATCAGTAAGTCTAACTTCTGTGTCTCAGTTCCCTTACCAATAAAATAAAAATAACAGCATCCCCTTGTAGGATTCTTGTTCTGGAGTGAGGACCGAAGCAGGAGATGGTGTGTGGGTCTTACCAGACCAGCTACACAGCTTTTTTTTTTTTTTTTTTTTTTACATTGTTGAAATGATTTCTACACATGCCTGTGTGCTGATTAGATCGGAAAGTCTTTAAGGCAAAGATTATCGTTTGTATTCTCTCCATAGTAAGTTATTTTTCCTACAGGCACTGCATGCATGTGAAAACGCAGAGTAAGGAATCTTGCTGGACATGGTGGTGCAGGGTTTTAATCCCAGTACCAGGGAGGCAGAGGCAGGTAGATCTCTGTGAGGTTGGGGCTAGTCTGGTCCACCATACCAAGTTCCAGGCCACTCAGAGCTTCATAGATTGTCTCAAAAACCAAGAACCCAAGAGACCTTTTGCCAGAAGAACTTCTAATTACCATGATGTACTTGCGCTATTGGCCATAATCCCTGTACAGAAAGCCAGGATCTGACTCACTGCTGTTGTTTGCGTGTCTGTCACCGGTTGAATTGATGACTAAATGGTAGATGACCTAGCCTCTTCAGAACCCTCAGTGACATCATTTCACGATGGCCTGTCCACCTTCCACACTGTCACCTCCCTCGTGCTGTATGAGGCTGCTGAGATGGAACGGCTTTCCCTCACAG
Seq C2 exon
GTGTCGGTGACGTTTGAAGACGTGGCCGTGCTCTTTACCCGGGATGAGTGGAAGAAGCTGGTTCCCTCTCAGAGAAGCCTGTACCGTGAGGTGATGCTGGAGAACTACAGCAACCTGGCCTCGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020335:ENSMUST00000109124:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.909 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
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:
TCGCATTTTTGGACACTGTACC
R:
GAGGCCAGGTTGCTGTAGTTC
Band lengths:
206-1603
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