MmuINT0180484 @ mm9
Intron Retention
Gene
ENSMUSG00000031310 | Zmym3
Description
zinc finger, MYM-type 3 [Source:MGI Symbol;Acc:MGI:1927231]
Coordinates
chrX:98608828-98609393:-
Coord C1 exon
chrX:98609243-98609393
Coord A exon
chrX:98609001-98609242
Coord C2 exon
chrX:98608828-98609000
Length
242 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
GCCTGTTCTCTCCTTTCTAGGCT
3' ss Score
11.88
Exon sequences
Seq C1 exon
GACCAGGTCTTCCAGTTCTGCTGCCGTGATTGCTGTGAGGACTTCAAGCGGCTTCGGGGTGTGGTATCCCAGTGTGAGCACTGCCGGCAGGAAAAGCTCCTGCACGAGAAGCTTCGATTCAGTGGGGTAGAGAAAAGCTTCTGCAGTGAAG
Seq A exon
GTAAGGGAGCGAGCTAGGCACCGAGGGAGGCCCTGTCGTCTCCTATGACCAGGGAAGAGAGCAGAGCAAGGAGCAAGGATGCAAAGTAGGCCCTCGTCAGGATGCTCTACCACATTTATGCTAAAGCTTTAGGTGTAGGACTCTTTTGAGGAGGTTTCAGATGTTGCACTTTGGAAAGACTGGGTCTAACACCGATGAGTAACTCTGTCTCTGGGCTCTCTTGCCTGTTCTCTCCTTTCTAG
Seq C2 exon
GCTGTGTACTGCTGTACAAGCAAGATTTTACTAAGAAGCTGGGCTTATGTTGTATCACCTGTACTTACTGTTCCCAAACCTGCCAGCGTGGTGTCACTGAGCAGCTGGATGGCAGCACCTGGGACTTCTGCAGCGAGGACTGTAAGACCAAGTACCTGTTATGGTACTGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031310-Zmym3:NM_001177985:11
Average complexity
IR-S
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(34.1=27.5),PF064679=zf-FCS=PU(84.6=64.7)
A:
NA
C2:
PF064679=zf-FCS=PD(12.8=8.6),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:
ACCAGGTCTTCCAGTTCTGCT
R:
TCTTACAGTCCTCGCTGCAGA
Band lengths:
297-539
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: