MmuINT0180516 @ mm10
Intron Retention
Gene
ENSMUSG00000042446 | Zmym4
Description
zinc finger, MYM-type 4 [Source:MGI Symbol;Acc:MGI:1915035]
Coordinates
chr4:126899932-126900748:-
Coord C1 exon
chr4:126900605-126900748
Coord A exon
chr4:126899970-126900604
Coord C2 exon
chr4:126899932-126899969
Length
635 bp
Sequences
Splice sites
5' ss Seq
AAGGTATAG
5' ss Score
7.98
3' ss Seq
ATGTTTCAATTTCTATTAAGGTG
3' ss Score
7.61
Exon sequences
Seq C1 exon
TAGCAAGTATTTCCATGGTTCAAGCTGCTTCTGCAGGGCCTCCGTCCCTCAGAAAAGATTCAACTCCAGTCATTGCTAATGTGGTATCTTTAGCAAGTGCTCCTGCTGCCCAGCCCACAGCAAACACCAACAGCGTCTTACAAG
Seq A exon
GTATAGCTTGATTTGGACCGCCTTTCTTACTACTTGAATTAAATATTGTATATGGTAGGTTATTTCTGCACTGGTAAAATGAGCCAATTCAAAGCAGATTAGAATATATGAATGGCAGGTCAGTTGGGAAGCTGCTCTCAGGTGACTTCACTGACTCCCAAGGACCAAGGCTAAGGAAGTCACCATGGGGGTGAGGGTTGGGAAGAAAGAAAGGGCACACGTGTAGTGGGGAGGAGATCCAAAATGTTTGGATTATATAGGGGAGAGCCTCTAGAGGAAAGAAAGCCCATCCCCTGGGCTGGAAAGCTCAGGGTTGGGACAGGGTATATGCCAGGTAGGGAAGGATGCTGAGAGAACCTGGAGGCCAGTTCTGCTTTGAGATGTAAAATACACACTTTAATCCCTTGTCTCAGGGTCCTAAACCAAACTGTATGTAGCTCCTGGCAGCTTGCAGCACCACTAATACGCACCGTGGTGTCTTCACAAAGTCCCCCATCTTTTTTTCTTTTTTTAACTTTCAGGTTTACTGCTTGCTTTTACTGAACTAAGTGGAAAGATACATATCATCTGACTAGTGTTTATGAGCTGATGTTTAAATTTAAAGATCCTAAATTTATGTTTCAATTTCTATTAAG
Seq C2 exon
GTGCAGTTCCAACAGTTACAGCGAAAATCATTGGGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042446:ENSMUST00000106108:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.122 A=NA C2=0.000
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:
TAGCAAGTATTTCCATGGTTCAAGCT
R:
ATCCCCAATGATTTTCGCTGT
Band lengths:
182-817
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