MmuINT0180541 @ mm10
Intron Retention
Gene
ENSMUSG00000040123 | Zmym5
Description
zinc finger, MYM-type 5 [Source:MGI Symbol;Acc:MGI:3041170]
Coordinates
chr14:56797668-56799192:-
Coord C1 exon
chr14:56798910-56799192
Coord A exon
chr14:56797831-56798909
Coord C2 exon
chr14:56797668-56797830
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:ENSMUST00000173954:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.495 A=NA C2=0.055
Domain overlap (PFAM):
C1:
PF064679=zf-FCS=WD(100=43.2)
A:
NA
C2:
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
- 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