MmuINT0180556 @ mm9
Intron Retention
Gene
ENSMUSG00000042408 | Zmym6
Description
zinc finger, MYM-type 6 [Source:MGI Symbol;Acc:MGI:106505]
Coordinates
chr4:126780656-126781665:+
Coord C1 exon
chr4:126780656-126780931
Coord A exon
chr4:126780932-126781514
Coord C2 exon
chr4:126781515-126781665
Length
583 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
GCTGTTCCTTGTTTTTACAGGGT
3' ss Score
10.28
Exon sequences
Seq C1 exon
AATGTATTTAACAAGCCAAAGGGAAGAAACTCTTCATTGGCACCCATATCTCAGGGCCAAGAGGTGAGGAGCACACCTGTGCAGTCTGCAGTGTTAGCAAGAAAAGATGCCCCTGCCTCTTCCTTCAGTAGCCCCATCAGCAACCCTGCTGCAACAGCCCTGGAGACTCTTGCTAAACAGTCCCACCAGATTGCTTTGACCCATTTATTCTTGAAACTCACGTGCCTGCAGTGTAGTCTTCTGTTTGCCACAAAGCCAGAGCTGCTTTTCTACAAG
Seq A exon
GTGAGGAGACAGCCTGAAGGAGATTCGTGTAAACCATCTAGTAAGAGTGTTTCTGGGTTTTCCACTTTGACAAAGTTCTTCAGTTTGTGTTGACTTAAAAACACATTTATTTTGTGTATGTTTGTGTATTCAGACATATGAGCATTCATTCCATGGTGTGCATGTGGAGTACAGTTGGCAAGAGTTGGTTCTCTCCTTCCATCACATGGGTCCTGGGATGGAACTTGGGTTGTCAGGCTTGTGCCTGGAAAAAAACGTGCTAAAGAGAAAACTGCTGTTTAGATAGATTTTTATAAAAAGAGGGAGATTTAACTCTCTCTCTCTCTCTCTCTCTCTGTGTATGTGTGTGTGTGTGTGTGTGTGTGTAGATGTGCACGTGTTATCACAGTACCTGTGGAGGCCACAGGCGTTAGATCCCCTTTATAGCTGCAGTTAATCTAGGTAATTGTGGGCAACTGATCGTGGGTACTGAGAATTGAACCCGGGCTGTGGAAGAGCAGTACACCCTTGGCCATCGAACTGTGTTTCCAGCCCATGTTCCTGTGTTTGGTTAGAGCTTAATGGCTGTTCCTTGTTTTTACAG
Seq C2 exon
GGTAGGATGTTTATGTTTTGCAGCAAGGCTTGCTGTGATGAATACAAAAGGCAGAATAAAGTTAAGGCCTTGTGCGACTACTGTAAGCTACAGAAGACCATAGAGGACACGGTGCGGTTCTCAGGGATTGACAAGCCGTTCTGTAGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042408-Zmym6:NM_177462:8
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.033 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF064679=zf-FCS=PU(59.0=25.0)
A:
NA
C2:
PF064679=zf-FCS=PD(35.9=27.5),PF064679=zf-FCS=PU(91.9=66.7)
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:
ATCTCAGGGCCAAGAGGTGAG
R:
GCACCGTGTCCTCTATGGTCT
Band lengths:
344-927
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: