MmuINT0180346 @ mm9
Intron Retention
Gene
ENSMUSG00000020472 | Zkscan17
Description
zinc finger with KRAB and SCAN domains 17 [Source:MGI Symbol;Acc:MGI:2679270]
Coordinates
chr11:59305617-59306783:-
Coord C1 exon
chr11:59306673-59306783
Coord A exon
chr11:59305731-59306672
Coord C2 exon
chr11:59305617-59305730
Length
942 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGT
5' ss Score
8.83
3' ss Seq
TCTCCATTCTCTTTGGAAAGACC
3' ss Score
3.26
Exon sequences
Seq C1 exon
ATGAGCCTCCAGTTCAGCCAGGCCACTCCCATGAAGAGGAGAACGGGTTGCGGGTCACAGAGTGGACGACAGACCTCCAGGATAAAGAAATCCCCCAGGCCTCCTGCTTAG
Seq A exon
GTGAGTGACAGTCAGAGGTGGGTGGACAGCAGGGTGGAAACCGATTGCAGCCAGAGCACCCCAGCATTCCTCCCCAGCTCCCCACTCTTGGCATTACCTCAGAGTCTTACCTTGACTCTGGCTTCTCGTAGAGAGTGGGCAGGCGAGGGGTGGCTATGCATAGAGATTGTATTCCTCAACCAAGGACTTGTAGAGAAGGAAATGTCTTCTGCTATCTAGAGTAGCCTTAGGTTTGTAATAAAGTCCTCTCTAGAAGAGTGGTCAGATGCATATGGCTGAGGACCCGGCACAAAGTGCAACCCTTTTAGACACTGCTAGCCTGCTCCCCACCCACTCACAAGAGTGCTTGGAGAATTCCATGGGGAGGGATGGGTGAAGATTCATTCTGTGTGTGTGTCTATGTGTGTATAACCTGTGCTATGAAGTGGCGTGGCCTTGAACAGAATCAACAGCAACCCTGGACCTCCATCCCCTCTGACCCCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTCTGTGTGTGTGTCTGTGTGTGTGTGTGTCTGTGTGTGTATAATCTGTGCTATGAAGGCACATGGCCTTGGACAGAATCAGCAGTAACACTGGACCTCCATTCCCTCTGGCCCCTCCCATCTCTGTCCTGTAGGCTCAACACAGTCTGTTTGTGGAAGGTCTGTGTGCCGTGCAGGGCCTACCATGGAAGGTGTTACCCATCTGTAGTAGAACTAGAACCTACATTAATTGAGTCCAACTTCAGAACCTAGGTTCATGGTGTTTGCTCACTTGCCTTCAGGTTCCTTCACTCAGCAGAATGACGCCTCGTGCTCGCCCCAGAAGGAGCGCAGCACCTGCAGATCATAGCCTGCCTCTTCCTTAGTGGCTTCTGAGTAGTGATATCGGTATGTGACAAATCACTTTCTCCATTCTCTTTGGAAAG
Seq C2 exon
ACCTTTCCAGCCTCCAGCCATTCCAAGGAGAAGAAAGAAGGAAGTGGGAGGAGCTGCAGGTGCCAGAGCTCCAGCCCTGCCCACAGGTGGTGCTCAGTCAGAGTCCCTGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020472-Zkscan17:NM_001130529:8
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.842 A=NA C2=0.590
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
ATGAGCCTCCAGTTCAGCCAG
R:
GACAGGGACTCTGACTGAGCA
Band lengths:
222-1164
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: