MmuINT0180341 @ mm9
Intron Retention
Gene
ENSMUSG00000020472 | Zkscan17
Description
zinc finger with KRAB and SCAN domains 17 [Source:MGI Symbol;Acc:MGI:2679270]
Coordinates
chr11:59319330-59320142:-
Coord C1 exon
chr11:59319666-59320142
Coord A exon
chr11:59319465-59319665
Coord C2 exon
chr11:59319330-59319464
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
GATCCCCTTACACCTCATCCCTCCTCCTCCCAATTCTGGCATTTCGCCAGCGCCGCCAGACCAGCCCTTCCCTGCGCCCACACAAGAGGAGCAGAGAAGAGCAAAGCCCCAAGCCGGCCTCCCTGGCTGGTGGCCGCGCGAACTGGCCCCCAGCGCCCGGGTCCCGCCGGGGCGCGCGCGCGCATCCCGAGCCCGCTAGGAAGGCCCACAAAGCTAAAGCCCGGGCCCCGGGCCCAGGCCGGGAGAGCACGGAGCGGGGCGGGGCGGGGCGGTCCAGGCGGGCCGGGGGTGTCGGATGTCACCCCCCCGCGTACACCTCGGCCAGGAGGCGGGGAAGCGAACCACTGAGATGAGGAGACCTCCTCGGTCCTAGAGCGGTGCAGGAAGTGTCCCAGGGGAGGGAGCCGGAGGGCTCCGGCCTTTCCTTTCCGCGGCGGCCCGGCCTACGCGGCCCGCCAACCGGGACGCTGCGCAGCG
Seq A exon
GTGAGTATACTGTGGCCCGGCTTCCCATGCCCCGCTGTCTGAACCCGGAACCCGCTCCCCACTTCCCGCGCTCTGATCCCCAGCCCGCGCCTGGGTCCTGCTCCCTGTTCTCCTCTTCCCGCGTCCGGGCCCAGATCCCTGCTCCCAGAGCCGCGTCCTCATAGGTGCCCTCGGGGATGAAGCAATACAATTCTCTTCCAG
Seq C2 exon
GCGTCTCCCTTCGCTCCCAAGCCCAGCTGATGCATTCTAGAGGATCCCGAGACAGGGTTGGCCTGGCCAGGGACCGAGTCTGGCCCATGCATTGGAGCCGCCTCTGCCAAAACACCAGAGAGACCGAGCTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020472-Zkscan17:NM_001130529:1
Average complexity
IR-C
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
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
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
Other AS DBs: