MmuINT0180557 @ mm10
Intron Retention
Gene
ENSMUSG00000042408 | Zmym6
Description
zinc finger, MYM-type 6 [Source:MGI Symbol;Acc:MGI:106505]
Coordinates
chr4:127104271-127105446:+
Coord C1 exon
chr4:127104271-127104421
Coord A exon
chr4:127104422-127105273
Coord C2 exon
chr4:127105274-127105446
Length
852 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
GTGTCCTTGCTGGTGGTTAGTTT
3' ss Score
3.69
Exon sequences
Seq C1 exon
GGTAGGATGTTTATGTTTTGCAGCAAGGCTTGCTGTGATGAATACAAAAGGCAGAATAAAGTTAAGGCCTTGTGCGACTACTGTAAGCTACAGAAGACCATAGAGGACACGGTGCGGTTCTCAGGGATTGACAAGCCGTTCTGTAGTGAAG
Seq A exon
GTAAGAAGGCGTTCAGTATTACGTATACGTAGTGGGTTCATGATCAGTTTTTATTTTCAAAACCTTTGCTTAGGAAGCATTACTTGAACATTATTTTTTTCCCTTTTTTCAAGATATGGTTTCTTTGTGTAGCCTTGGCTATCCTTGAACTTGTTCTGTAGACCAGGCTAGCCTCAAACTCTTATTATAGAGATTCTCCACCTCCCAAATGCTAGGATTAAAGGCATGTGTTACCGCCACCCAGCTGCTTGAACATTCTTAAAATGTTGAATTTACACAGTTTATACTTAGTATACCTTGAGATCTACCTTTTAAAGCATTTCAGTAATCTCAATAAAGAAAAAACCTATAGTTAATGGCATTAGTAGAGAAAAGTAAGTTTAGCTAGGATTTTTATTTTTTGTTTTACCTATTTGCAAAGTAGAAACTTAATCAATTGCTGCTACTTTGAAGCCCCTGATGTTTCAGAATATGGATGACTTATTAAAAGCATGTTAAAACATCAATTTGAGTTTGTTTTGTGAATATGAAGGTTATCCTATAATGTAGGCAAATAATTATGGCAGGAAATCAAACCCAGGTCTTTTGAAGAGCTTTTAACTGCTGGCCAATTTCTTCAGCCTCTTTTTTTTTTTTTTTTAAGGCAGGATCTCAAGTAGCTCAGTCTGGCCTTGAAGTTGATAAAGTAACTGAGGCTGGTCTGGAACTTGTGCTATTCCCACCTCAAAGGTGCTGGGCTTGTAGCCTGTAGTGTCACTGCTGGCTGGGAATGAGCTCAGACACTGGACAGTCATTTCACCTCCTTAAAGCTAATGCATATTTGTCTCTCCTTGTGTCCTTGCTGGTGGTTAG
Seq C2 exon
TTTGCAAGGTCCTCTCGGCTCGAGACTTTGGGGAAAGATGGGGAAGCTACTGTAAGACGTGCAGTTACTGTTTACAGACGTCTGCAAATTTTGTGGAAAACCAACTGGAAGGCAAGCTCCAGGTTTTTTGCTGTGAAGATTGCATGTCTAAGTTTACAGCTCTGTTGCATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042408:ENSMUST00000046751:9
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=0.000
Domain overlap (PFAM):
C1:
PF064679=zf-FCS=PD(35.9=27.5),PF064679=zf-FCS=PU(91.9=66.7)
A:
NA
C2:
PF064679=zf-FCS=PD(5.4=3.4),PF064679=zf-FCS=WD(100=69.0),PF064679=zf-FCS=PU(10.0=6.9)
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:
ATGTTTATGTTTTGCAGCAAGGCT
R:
CTGATGCAACAGAGCTGTAAACT
Band lengths:
318-1170
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