MmuINT0180498 @ mm9
Intron Retention
Gene
ENSMUSG00000031310 | Zmym3
Description
zinc finger, MYM-type 3 [Source:MGI Symbol;Acc:MGI:1927231]
Coordinates
chrX:98611506-98612320:-
Coord C1 exon
chrX:98612248-98612320
Coord A exon
chrX:98611801-98612247
Coord C2 exon
chrX:98611506-98611800
Length
447 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
TGCCCCGCCTACTCCCACAGTTC
3' ss Score
8.28
Exon sequences
Seq C1 exon
GTACAGAAGAGAAGCGAGCGCGTTAGAAGAGCAGAACCTCCAAAGCCTGAGGTTGTGGACTCCACTGAGAGCA
Seq A exon
GTAAGTAGGATTGGAGGAAGCGGGACCTGGGAATTCCAGGTGCACAGAAGAGCTTGAAGGTGGGATTAGGACAGGGCATGGGTCTTCTGGCCCCTGTAGTTCCTCTCTGCAGAAAGAGAAGTGCCTGTCTCTGCTGTGGGTTGGCATGGGAACCAAATGGTAGTGGGGGAAAATTGAAAAGAAGAACAGTAAGAATAGTAAGTTTCAACTATACTGTCCCTGTCCCCAGTCTTCTCTCTTAGAACCTCCCTTCCTCTCCTGAATATTGTAGAAAAACCATGAGTAGCTTAAGATCCAGTGTAATGGGAGAGGAAGTCTAAGGGCCAGAACAAGAGGGGAGTACCAGAGATCCCAGGATCAGTATTTGAACTTACTATGGATCTGACCATCAAATGGCTGGAGATCTGCTCTGGTGGTCTTTTCTCACTGCCCCGCCTACTCCCACAG
Seq C2 exon
TTCCAGTGTCAGATGAGGATTCTGATGCCATGGTAGATGACCCCAATGATGAGGACTTTGTGCCATTCCGGCCCCGGCGCTCTCCTCGCATGTCCCTGCGCTCAAGTATGGCACAAAGGGCTGGGCGCTCTTCAATGGGCACCAAGATGTCTTGTGCACATTGCCGGACACCACTGCAGAAGGGGCAGACGGCCTATCAGCGCAAGGGGTTGCCTCAGCTCTTCTGTTCTTCATCTTGTCTCACTACTTACTCCAAGAAGCCCTTGGGCAGAAAGACCTGTACCTTCTGCAAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031310-Zmym3:NM_001177985:4
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.511
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF064679=zf-FCS=WD(100=41.4),PF064679=zf-FCS=PU(28.9=13.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCGCGTTAGAAGAGCAGAAC
R:
AGGTACAGGTCTTTCTGCCCA
Band lengths:
342-789
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: