MmuINT0180513 @ mm10
Intron Retention
Gene
ENSMUSG00000042446 | Zmym4
Description
zinc finger, MYM-type 4 [Source:MGI Symbol;Acc:MGI:1915035]
Coordinates
chr4:126904397-126905429:-
Coord C1 exon
chr4:126905279-126905429
Coord A exon
chr4:126904570-126905278
Coord C2 exon
chr4:126904397-126904569
Length
709 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATT
5' ss Score
8.83
3' ss Seq
TATCTTTTCTGATTTCTTAGGTT
3' ss Score
9.86
Exon sequences
Seq C1 exon
GGTAAAATGTTTCAGTTCTGTGGCAAGAATTGTTGTGATGAATATAAGAAAATCAATAATGTAATGGCAATGTGTGAATACTGTAAAATTGAGAAAATTATAAAGGAGACTGTGAGGTTCTCAGGTGCTGACAAGTCATTTTGTAGTGAAG
Seq A exon
GTAATTGACAAATAGTAATCTTACTGAGCGTGGCGGTGGTTTCTAATGTAGTTGTTGACTAAAGGGATTACTATGCCAGTCTATTTTATCCTTTGTACAGACCCTCAACATCTTTTTTATTTATTGACAGATAATTTGCTATTTTGTCTAGTTCTTTAATTTTATGTAGATATTAAAATGAAGTCAAAGATCTTCTAAAGTACAGTACATAATATGGCACACAGGATACATTTAACCCCATTAGCTTGATGGACAGCTCAAAGACCTTTAGGTCCTGTCCTCATTTCTAGATGGAAGGTTTTAAGTTCTAGTAGCACCCTGAGTTTGTGTTTCTGAATAAGTATATCAAAGTGAAGCTAATTTTCTCTTTTTTAGATAATATACATGTTTAGGAACGTTTTACTTGACTCTAACATGGTACTGTTATCCTTCTTGACCAGTGTCTTTCAATTATTTAACTATTATACAAATTAATTACATTTCACATTACATCCTACTATAAACCTAGGATATGTTCACACTTTAAATGAAACAAAAACTTTATGCAATGAAACTTACAATATATAACATATAGTTCAGTCTGCACACACACAGCTGTCTAGTTTTGATATATAACTGACTTCTTGACCTGTCAGTTGGTTAAGTCCCATGTGTGAAAACATTATTATTATTCAGTCCATATTAATTTTTATCTTTTCTGATTTCTTAG
Seq C2 exon
GTTGCAAATTGCTTTATAAACATGACTTGGGAAAACGCTGGGGAAGTCATTGTAAAATGTGCAGTTATTGTTTACAGACATCTCCCAAACTGATACAGAATAATTTGGGTGGAAAGGTGGAAGACTTCTGTTGTGAAGAATGCATGTCTAAGTATACAGTTTTGTTTTATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042446:ENSMUST00000106108:13
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=0.000
Domain overlap (PFAM):
C1:
PF064679=zf-FCS=PD(34.1=27.5),PF064679=zf-FCS=PU(85.0=66.7)
A:
NA
C2:
PF064679=zf-FCS=PD(15.0=10.2),PF064679=zf-FCS=WD(100=67.8),PF064679=zf-FCS=PU(2.7=1.7)
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:
TGTTTCAGTTCTGTGGCAAGA
R:
AACAAAACTGTATACTTAGACATGCA
Band lengths:
310-1019
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