MmuINT0180341 @ mm10
Intron Retention
Gene
ENSMUSG00000020472 | Zkscan17
Description
zinc finger with KRAB and SCAN domains 17 [Source:MGI Symbol;Acc:MGI:2679270]
Coordinates
chr11:59505828-59506644:-
Coord C1 exon
chr11:59506164-59506644
Coord A exon
chr11:59505963-59506163
Coord C2 exon
chr11:59505828-59505962
Length
201 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
3' ss Seq
GCAATACAATTCTCTTCCAGGCG
3' ss Score
7.09
Exon sequences
Seq C1 exon
GGGAGATCCCCTTACACCTCATCCCTCCTCCTCCCAATTCTGGCATTTCGCCAGCGCCGCCAGACCAGCCCTTCCCTGCGCCCACACAAGAGGAGCAGAGAAGAGCAAAGCCCCAAGCCGGCCTCCCTGGCTGGTGGCCGCGCGAACTGGCCCCCAGCGCCCGGGTCCCGCCGGGGCGCGCGCGCGCATCCCGAGCCCGCTAGGAAGGCCCACAAAGCTAAAGCCCGGGCCCCGGGCCCAGGCCGGGAGAGCACGGAGCGGGGCGGGGCGGGGCGGTCCAGGCGGGCCGGGGGTGTCGGATGTCACCCCCCCGCGTACACCTCGGCCAGGAGGCGGGGAAGCGAACCACTGAGATGAGGAGACCTCCTCGGTCCTAGAGCGGTGCAGGAAGTGTCCCAGGGGAGGGAGCCGGAGGGCTCCGGCCTTTCCTTTCCGCGGCGGCCCGGCCTACGCGGCCCGCCAACCGGGACGCTGCGCAGCG
Seq A exon
GTGAGTATACTGTGGCCCGGCTTCCCATGCCCCGCTGTCTGAACCCGGAACCCGCTCCCCACTTCCCGCGCTCTGATCCCCAGCCCGCGCCTGGGTCCTGCTCCCTGTTCTCCTCTTCCCGCGTCCGGGCCCAGATCCCTGCTCCCAGAGCCGCGTCCTCATAGGTGCCCTCGGGGATGAAGCAATACAATTCTCTTCCAG
Seq C2 exon
GCGTCTCCCTTCGCTCCCAAGCCCAGCTGATGCATTCTAGAGGATCCCGAGACAGGGTTGGCCTGGCCAGGGACCGAGTCTGGCCCATGCATTGGAGCCGCCTCTGCCAAAACACCAGAGAGACCGAGCTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020472:ENSMUST00000013262:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAAAGCTAAAGCCCGGGC
R:
AGAATGCATCAGCTGGGCTTG
Band lengths:
308-509
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