MmuINT0180523 @ mm10
Intron Retention
Gene
ENSMUSG00000042446 | Zmym4
Description
zinc finger, MYM-type 4 [Source:MGI Symbol;Acc:MGI:1915035]
Coordinates
chr4:126889515-126890175:-
Coord C1 exon
chr4:126889996-126890175
Coord A exon
chr4:126889610-126889995
Coord C2 exon
chr4:126889515-126889609
Length
386 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGT
5' ss Score
7.44
3' ss Seq
CTTTCTGCTGCTTTTTTCAGAAT
3' ss Score
10.86
Exon sequences
Seq C1 exon
ACCAAGGAAGTACATATAGTGGTGATCTTGAGTCAGAAGCAGTATCAACTCCACACAGCTGGGAAGAAGAGCTGAATCATTACGCATTAAAGTCGAATGCTGTGCAAGATGCTGATTCAGAACTGAAACCGTTTTCAAAAGGGGAAACAGAGCAGGATCTGGAGGCAGACTTCCCATCAG
Seq A exon
GTTTGTACCTCATAGACGGCTGAAGGTCGTCATAGACGGCTGAAGTCAGAAGATTGGGAGAGCTCCAAGTTTGCAGGGTTAAACGGTGTGAAGTGTTCGGGAGTCTTCTGCCTTTATAAATGTGAATATCTGTTGCAAGGTTCTTGTAAGTGGTTAATTTTATTGTTTGCAATTTTTAATGACCTTTTCAACAGTAACTATTTACGGATGGTTTCCTTGCTAACTGCCGTTTCATTCATGTGTTAAAATCCGTTGTGCATCTTAACTATATAAGCGGAGGTCTTTATCACGGAGACTGGACTGATGATTACTGATACTAGTCTTATGAGCTCTCTTAAGTCTGTGTGTTACATACCTCACACTGGGCTTTCTGCTGCTTTTTTCAG
Seq C2 exon
AATCTTTTGACCCACTTAATAAAGGACAGGGGATCCAGGCACGTTCTCGAACAAGACGAAGACACAGAGATGGATTCCCCCAGCCCAGACGGCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042446:ENSMUST00000106108:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.898 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
ACCAAGGAAGTACATATAGTGGTGA
R:
GTCTGGGCTGGGGGAATCC
Band lengths:
270-656
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