MmuINT0180541 @ mm9
Intron Retention
Gene
ENSMUSG00000040123 | Zmym5
Description
zinc finger, MYM-type 5 [Source:MGI Symbol;Acc:MGI:3041170]
Coordinates
chr14:57416505-57418029:-
Coord C1 exon
chr14:57417747-57418029
Coord A exon
chr14:57416668-57417746
Coord C2 exon
chr14:57416505-57416667
Length
1079 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGC
5' ss Score
7.31
3' ss Seq
CTTTCTCCTTTGTGTTTCAGAGA
3' ss Score
11.33
Exon sequences
Seq C1 exon
ATTCTTGGATCTCCCAGTCAGCATCATTTCCTCGTAACCAGAAACAACAAGGGGTGGATTCTTTATCACCAGTGGCCTCACTTCCTAAACAGATATTCCAGCCCTCGAACCAACAACCCACTAAACCAGTTAAAGTCACTTGTGCAAACTGCAAAAAACCTCTACAGAAGGGGCAGACAGCTTACCAGCGAAAAGGATCAGCTCACCTCTTCTGTTCAACCACCTGCCTTTCTTCTTTCTCCCATAAGCGTACTCGAAAGACACGGAATGTAATGTGTAAAAA
Seq A exon
GTAAGCAGACCTTAACATTTCTCATGTGGTTTAGTGCTCAGTACAAATGAATACTCTGGACATAATTGTAAGCTAGACTTGTGGTACGTGTGTCAGATGTTTTCACTTTTATTGAGATTGGGCTATTTTAGAACTGGAATCTCATCCTCACTGAAGTTTTAAAAGAGAATGTATGTTGTACAGAAGTGTAGTACCCTCTCTCAGCTGCTACATTTGCCTTTTCTGTTCTACATCTTACATGTTAGCTCTGGCAGCCTACCAGTTCAGTCAGTGCCTTTTCCATTGGGCCATCTCCTCAAGCCCACTATTAACTTTTTTTAAAGATTTATTTTATGGGATTGGAGAGTTGGTACAGTGTTTTAGAGTGCCAGCTGCTCTTCTAGAGGACCTTGGTTTGATTCTCAGTATCTAGGTTAATTGTAGTTAGCTCTAGTCTCTGGGAATCCAACACTCTCTTCTAGCCCTTATGGGCATTGTATCCTTGTGGTACACAGATGTACACACAGGTAAAATAACCATACACATAAAATAAAAATAAAGGAGAAAATTTTAAGTCCTGTGTGTTGTGTTTGACAAGACTCAGAGACGTTGCATCACCCACTAGCTGGAGTTAAAAGGTAATACTGAGCTGCCTGATGTAGGCTAGGCATCAAACTCAGGTTCTTTATAAAGAGCCAAACGTATATCAGTAAACCATCCGTTTAGCACCATTGGTTTTGTTTTTTCCTACCAGTGTTTTTCTTAAAGTTTTATTTATCTGAATGATGTTTTGCCTGTGTTTATATAAGTACACTCTGTAGGCCTGATGCCCTCAGAGGCCAGAAATCACTGGATTCCCTGGAGCTGGAGTTACGGACAGTTGTAAGCCACCGTGGGTGCTAAGGACTGAGCCTGGGTCCTCTACAAGAACATTAACTGCTGGGCCTTCTCTCCAGTCCTGAGTGCTAAGGAACATTAATGTTAGAAGAGTTTTCATTTGAATTTTCTTCTGTATCATTTAGGAAGGAGTGGAAGTAAAGTTGAAAATGGATTTTCAAATACAGTGATCTTCAGATATTTCTTTCTCCTTTGTGTTTCAG
Seq C2 exon
AGATTCTCCTGTGAGAACCACAACTATTGTTCCTCCAGTGGAGTCAAGCAAGTCCTTACAAGGATTTTATAATGCATCGCTATCTCCCTATGAAAACTGCCAGAGTCTTAGGAAAGAAGTTTTTACTAAGTCAAGATGTATAATCTGTAATAAATTAGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040123-Zmym5:NM_144842:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=0.061
Domain overlap (PFAM):
C1:
PF064679=zf-FCS=WD(100=43.2),PF032929=Pox_P4B=PU(6.7=8.4)
A:
NA
C2:
PF032929=Pox_P4B=FE(45.4=100),PF064679=zf-FCS=PU(40.0=29.1)
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:
ACCAGAAACAACAAGGGGTGG
R:
ACTCTGGCAGTTTTCATAGGGA
Band lengths:
353-1432
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: