MmuINT0180456 @ mm10
Intron Retention
Gene
ENSMUSG00000043872 | Zmym1
Description
zinc finger, MYM domain containing 1 [Source:MGI Symbol;Acc:MGI:1915560]
Coordinates
chr4:127050744-127051425:-
Coord C1 exon
chr4:127051275-127051425
Coord A exon
chr4:127050873-127051274
Coord C2 exon
chr4:127050744-127050872
Length
402 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
ATTTTGTTTATTTTTGTCAGTTA
3' ss Score
5.6
Exon sequences
Seq C1 exon
AAACCGCCCAGAATACTTAGATCTTCCCCGTGCAAATCACTGCAGCTGTCAGATGAGATGATTGCGATTACTAACGACTTGGGGAACGTAGAGGTTTACTGCTCTGCTTGTTCTTCTTCATACAACAGTGCTGTGATGGAGTCTCCTTCAG
Seq A exon
GTAATGCCTAACGGCCTCAGGCTTACTGTGTACTGCAAGAGAGCTACACTTCATGAAAGTAACTTAATTTTCCCAGTGAGTGCTGGAGAGATATCTTAGCAATTAAGAATGCTTGCTGTTTAATCATGAGGACCCAAGTTCAGATCCTAGCACCCATGTAAAAAACATTCACCTCACAAATGAAATAATCTTTATTCAAAAAGAAAAAAAAATCCAAACAGACTGGTAATGTTGTCAGTTGTCAGCCCAGACTGTCTGAGGCCCTGGGCTCGATGCCCACCAGGTGTTATGGTGGGCAAGCATTCTCCCACTGAGTTCTATAACCCTCAGCACAAAACCACTTACTATTAGACAGTGTTTTCTGCTTGGTTATAACAAACTAATTTTGTTTATTTTTGTCAG
Seq C2 exon
TTAATGTATCCATGGTGCACAGTTCTTCAAAAGAGAATCTCTGTCCAAAGAAATATCCAGTTATAAGCAATATAATGTCGTTAGTAAATAATCATGTTGACCTGGTCGTGAACACTGATCTCTTACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000043872:ENSMUST00000106102:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.030
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAACCGCCCAGAATACTTAGATCT
R:
TGTAAGAGATCAGTGTTCACGACC
Band lengths:
278-680
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