MmuINT0180512 @ mm9
Intron Retention
Gene
ENSMUSG00000042446 | Zmym4
Description
zinc finger, MYM-type 4 [Source:MGI Symbol;Acc:MGI:1915035]
Coordinates
chr4:126582523-126583391:-
Coord C1 exon
chr4:126583116-126583391
Coord A exon
chr4:126582674-126583115
Coord C2 exon
chr4:126582523-126582673
Length
442 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TACTAAATGTTTCTTTACAGGGT
3' ss Score
9.17
Exon sequences
Seq C1 exon
AATTTGTTTAACAAACCAACTGGAATGAATTCTTCAGTAGTGCCCTTGTCTCAGGGCCAGGTAATCGTGAGCATCCCCACAGGTTCATCAGCATCTGCAGGTGGAGGGAGTACACCCGCTGTGTCCCCCACCTCGATCAACAGCTCCGCTGCTGCTGGGCTCCAGAGGTTGGCTGCCCAGTCCCAGCATGTTGGGTTTGCCCGAAGTGTGGTGAAGCTTAGGTGTCAACATTGTAACCGTCTTTTTGCCACAAAGCCAGAGCTTCTTGACTACAAG
Seq A exon
GTAAGTGTGGGCTCCTAGCTGCTGTGCAAGTGCATGCACACAGGATTGTGAGTTTCAGATTAATGTGGCTACTTAGTCAGAACTTCTTTTTATAAAATACAGAAGAAATAAAACAGCAAAGTATAGGTCCATGATAAGAGTTTGAATATAAACTCAAATACACTCTGTAAATGTATTTTTTGACTTTCTGTCTCAAAATTGCACCATTTGGGTTTTTCATTTTTGAGATAGGGGCTTACTGTGTAAATCTGGCTGGCCTGGAACTTAGTCTATAGACAGGTTGGTTTTGAACTTAAAGAGGTCTTGTCTCTTGTCTGCTTTCTGAGCGCTAAGATTAGGACATGCCATGTGCTCAACTGCTTACCATGTATTTTTGAATTAAGAGGGATGAAAATTTCTATAATATAACCCAAATATCTAATTACTAAATGTTTCTTTACAG
Seq C2 exon
GGTAAAATGTTTCAGTTCTGTGGCAAGAATTGTTGTGATGAATATAAGAAAATCAATAATGTAATGGCAATGTGTGAATACTGTAAAATTGAGAAAATTATAAAGGAGACTGTGAGGTTCTCAGGTGCTGACAAGTCATTTTGTAGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042446-Zmym4:NM_001114399:12
Average complexity
IR-S
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=PU(61.0=27.2)
A:
NA
C2:
PF064679=zf-FCS=PD(34.1=27.5),PF064679=zf-FCS=PU(85.0=66.7)
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:
AGGTAATCGTGAGCATCCCCA
R:
TCAGCACCTGAGAACCTCACA
Band lengths:
349-791
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: