MmuINT0180531 @ mm9
Intron Retention
Gene
ENSMUSG00000042446 | Zmym4
Description
zinc finger, MYM-type 4 [Source:MGI Symbol;Acc:MGI:1915035]
Coordinates
chr4:126600308-126600874:-
Coord C1 exon
chr4:126600813-126600874
Coord A exon
chr4:126600479-126600812
Coord C2 exon
chr4:126600308-126600478
Length
334 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
TCCTTTATATTGTGTTTTAGGAC
3' ss Score
12.59
Exon sequences
Seq C1 exon
CTAATCAAGTTGAAGAAACATTACATACTCATTTACCACAAAACCCAGAAACAAACTTTAGG
Seq A exon
GTAAGTTTTCAGTGTGTATGTAGATTGCTGTTAACTGTGGCAAGTGTCAAAAGTTGTCTTTATGTCACTTTTCAAAATTCTGCTTGTGTTAGACAGAGCACTGATTTTTTTTTTAAACTATTATTTGCATAATGACATCTTGGGAGATATTCTAAAAAGCCTCGGATCTTAGGTTCTTTGTTTGCATTATTTAGACCATGAGCTTTTAGGCATAGGGACACTAACATATGTCCATTCAGAGTTCATTTCCAATGAGCTTTACTTTGGTTATTAACCCTGAAGAGGAATAATTTTTAAATTTGAATATTTATTAATCCTTTATATTGTGTTTTAG
Seq C2 exon
GACTCCAGCTACCCATTTGCCAGTAAAGAATCCATTGGTTCGGAACTGGGGAATTCGTTTGCATCAAATATTAGAATTAAAGAAGAACCTTTGGATGATGAGTATGACAGAGCAGTGGCGCCTCAGCAGGGACTACTAGACAGAGTTAAAGACGAACCTGACAATGCTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042446-Zmym4:NM_001114399:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.889 A=NA C2=0.635
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTCATTTACCACAAAACCCAGA
R:
TGAGCATTGTCAGGTTCGTCT
Band lengths:
206-540
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: