MmuINT0180555 @ mm10
Intron Retention
Gene
ENSMUSG00000042408 | Zmym6
Description
zinc finger, MYM-type 6 [Source:MGI Symbol;Acc:MGI:106505]
Coordinates
chr4:127101849-127103687:+
Coord C1 exon
chr4:127101849-127101964
Coord A exon
chr4:127101965-127103411
Coord C2 exon
chr4:127103412-127103687
Length
1447 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
TTTGCTTTGTATTAATTTAGAAT
3' ss Score
7.2
Exon sequences
Seq C1 exon
GTATACAGGTTGTGTGTCATAGTTGTAAAACTGCAGCAGTCCCTCAGTATCACCTAGCAATGTCAAATGGAACTATTTGCAGTTTCTGTAGCTCCAACTGTGTGCTGGCTTTCCAG
Seq A exon
GTATGATGCCAGGTGCTACTTCTTTCTAGTTCACTAAGGGATTGATTAATCAATGGCAAAACATTGTAAAAGACTAAGTGGTTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTTTTCAAGTTAGAGTTTCTCTGTATAGCCCTGGCTGTCCTGGAACTCACTCTATAGACCAGGCTGGCCTCGAACTCAGAAGTCCACCTGCCTCTGCCGCATATACCACTCCTGCCCAACCTAAATTGTTCTCTGTTACATTTATTTAGTATATGCTTGTGTGTCATGATAGCATGACTGAGCCATTTTGCCAGACCATTTTTTTTTCTTTACGGAGATAGTCTTGCTACATCGCCCAAATCAGACTGCCAATCATCTTGTCTCTTTCCCAAGTTATGGGATTATACATGATTGGTGTTAAAGTTTTGAATGCAGGGTTAGAAAAACCCACAGTCTACTTAAGCAATGTTTCAAAGGTCATAGGTCATTTGTATAAATATTTGGGAACGTTTGAGGCCAGATATCAGGCTTTCTTATTCATGGTCCTTGAGTCAAGTATTTTCCCCACCCACTTCTTCCCCTTGGTGCTCTTCTTTCCCTTTTTTCTTTTTCTTCTTTTCTTTCAGGGTCTCCTACTGTAGTCTAGGCTAGCCTTGGAACTCTATATGTAGCCAAGGGTGGCCTTGAACTCTGGATCCAAATATTGGGATTGTAGTTATGTGCCACCATACTGATTTTGGTTCTCTTCTTTTTAAAAGAGCGAGGCTAGAGTGTGGTTTGAGAGATGGAATGGTGAAGCTCAAAAGCTCATCTGGGCTCATGTGCCCCGTGTCCTGGTCTAGAAACGTAAAGATTCTCAGCCTGGATTGCTCCCCCTCTTGCATTTCTACCCACTCTGTGTAGAAAAGAGTAACGAATTTGTTTTTCTGGGTGTGAGGATGCCTAGTGTGTCCACTGCCACACTAGCAGTCAGGAGCTGCTTGGTGGTTTGTGTAGGGCTCGAGGAAGGCACCTCAGGGAGAATCTGCAGGAGTCTTTTGTTCTAGTTCATCACCTTTGAGTGTTTCGTTTTTTTAACCCTCTGTACTGGAAGGTATACCACTGAAATTCTTTCTATTAGCCAGGCAGTGGTGGTGCACGCCTTTAATCCCAGCACTTGGGAGGCAGAGGCAGGCAGATTTCTGAGTTTGAGGCCAGCCTGGTCTACAGAGTGAGTTCCAGGACAGCCAGGACAACACAGAGAAACCCTGTCTTGAAAAAAAAAAAAAAAAAACAAAGAAAGAAAGAAAGAAAAAGAAATTCTTTCTATTAGAAGTAAAAGCTAAAAAATGTTTGTGGAATGAAAATTAAAGGAAATTAAAATAATTATGTTACATTATTTCTTATTTGGTAAAATCTTTGCTTTGTATTAATTTAG
Seq C2 exon
AATGTATTTAACAAGCCAAAGGGAAGAAACTCTTCATTGGCACCCATATCTCAGGGCCAAGAGGTGAGGAGCACACCTGTGCAGTCTGCAGTGTTAGCAAGAAAAGATGCCCCTGCCTCTTCCTTCAGTAGCCCCATCAGCAACCCTGCTGCAACAGCCCTGGAGACTCTTGCTAAACAGTCCCACCAGATTGCTTTGACCCATTTATTCTTGAAACTCACGTGCCTGCAGTGTAGTCTTCTGTTTGCCACAAAGCCAGAGCTGCTTTTCTACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042408:ENSMUST00000046751:7
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=0.033
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF064679=zf-FCS=PU(59.0=25.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTGCAGCAGTCCCTCAGTAT
R:
GGCTTTGTGGCAAACAGAAGAC
Band lengths:
344-1791
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