MmuINT0180528 @ mm10
Intron Retention
Gene
ENSMUSG00000042446 | Zmym4
Description
zinc finger, MYM-type 4 [Source:MGI Symbol;Acc:MGI:1915035]
Coordinates
chr4:126868717-126870294:-
Coord C1 exon
chr4:126870183-126870294
Coord A exon
chr4:126868966-126870182
Coord C2 exon
chr4:126868717-126868965
Length
1217 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGG
5' ss Score
9.33
3' ss Seq
TTCTTCTCCGCCCTGTCTAGGTT
3' ss Score
9.78
Exon sequences
Seq C1 exon
TACCTATTTGAAAATGGTAGAATAGATAACATTTTTACGGAGCCCTATTCCAGATTTATGATTGAACTTACCAAACTCTTGAAAATATGGGAACCTACAATACTTCCTAATG
Seq A exon
GTAAGGGTATTATTTTTAATTATTTTATGATATACTTGTATAAATTGATTTTTTTAAAAGTATTTCATATATTGCAATATAATCTGTTTTGATGTAATACAGTTCAGCTTTTAAGGAGAAAATCTTAGATTTATTGTTGAGCATTTTAGTAAAATGCAACTGTCAACAGTGTATGAGACTAATATACAACTCAAAACATACTCAATTATTGTTGTATTTGTAGGAATGTTTTATCTGGTAGTATCATGGAACCTACATACTGGTCACTACGGATCAACTCAGATGCGTTCCATGCACAGATGATCTTTTCAGAATGCTGGTGATCTGTGCTTGTTTTATCGTTGAATTTTTAACCAATGTTGTTAGAAAAGTCTGTGGTTCACCCCAGCTCTCAGGCTGCGACTGGAGAAGTGAGGGCGATAGCCATGACTGTGCCCTTCTCTTGAGCTCTGGAGAACCTTTGGAGCATTCTGAGCCACACACTGTTTGAGAGAAGGCTGGCAACATATATTTGGAAGTAATAAAGTCATGTTTAGGGATGATCTCCAAGAATAGAATACAGAAGCAGCAACAGAGAAGATAAAAAGAGAGCATTGGGTTAGACCTGAATGAGGGACATGAAGAATCCTCTCCAAGGAGCAGGGCAGTTTGTTAAGACCTTGACCTTTTCAATACAGATCCTAGTTAGTCCCGAGGTGCATAGGACTGTTAGTTCAAGTTAGGAATGAGAGGGAGGGCGGGAGAGTCCATCTTGCTAAAAGGTAAGCGTGATGGTCTGGGCAGTAGCTGCTTCATTTCCCATGGACCAAAGCTGACTTCGTCCTGGTTCTGTAGTCTGAGCTTTAAAAAAAAAAAAGGTTTTTAATTATTTATTTATTTACATCCTAATCCCATCTCCCTCCTCTCCTCCCTTTCACTTCCCCATCTTCGTATTTTTAAATGGTTAGAAACTTGAAAGAAAAATATTTTGTGATATGAAAATTGCATGAATTCAAATATCTATAAATAAGCCTTATTGTTGAGAGAAAGTGGCCTTCTTGGGAAAGATAAAAGAGTACAGGGTAGAGCTGGGCCGTCCCGTTGGAGTGCTGTTCTTCCTGGTGCTGCTTCTGTTTGCTGCATAGAGAAGAGGTGGGAGAGCAGTCAGCGCCTTACTGTGCTCCGCTTGTACAAGTGGAGATTACATGGCTCTCTTTGTTCTTCTCCGCCCTGTCTAG
Seq C2 exon
GTTACATGTTCTCCCGCATTGAAGAAGAGCATCTGTGGGAGTGCAAACAGCTGGGCGCTTACTCGCCCATTGTCCTGTTAAACACCCTCCTTTTTTTCAATACCAAATACTTCCAACTAAGGAATGTTACTGAGCACTTGAAGCTGTCCTTTGCCCACGTGATGCGCCGGACCAGGACTCTGAAGTACAGCACCAAGATGACGTACCTGAGGTTCTTCCCGCCTTTACAGAAGCCGGAGTCAGAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042446:ENSMUST00000106108:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.018
Domain overlap (PFAM):
C1:
PF120123=DUF3504=PU(0.1=0.0)
A:
NA
C2:
PF120123=DUF3504=PU(47.7=98.8)
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:
GAATAGATAACATTTTTACGGAGCCC
R:
CTGGCTCTGACTCCGGCTTC
Band lengths:
342-1559
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