MmuINT0180519 @ mm9
Intron Retention
Gene
ENSMUSG00000042446 | Zmym4
Description
zinc finger, MYM-type 4 [Source:MGI Symbol;Acc:MGI:1915035]
Coordinates
chr4:126570539-126572639:-
Coord C1 exon
chr4:126572524-126572639
Coord A exon
chr4:126570711-126572523
Coord C2 exon
chr4:126570539-126570710
Length
1813 bp
Sequences
Splice sites
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
3' ss Seq
TTCGGTCTTTGTTTTTTCAGATG
3' ss Score
10.56
Exon sequences
Seq C1 exon
ACACTCCAAGTGAGCCCCAGGTTATGGTGGTACCAGTCCCTGTGCCAGTGTTTGTTCCCATACCTCTTCATCTTTACACCCAGTATACTCCTGTCCCCTTTGGGATTCCAGTTCCT
Seq A exon
GTGAGTAATCATTGAGAGATAAGATCTAATTTAGCTTGCATTTTCCTCACTTAAAATTTTACAGCTGTGTAATAAAATGTCATACTTCTTGGTAAAATATACCTGATTTTGGTTGGCTGCTGTTATATTGCCTTTGTTACTTATTTCAGAGAATGTAGACATTGTCCTTTACTCTCATACCTTATCTTCTGAAAGAGTGTTATAATGTAGCATGGTGTCTCACACCTGTAATCTCAGTACTTGAGAGGCTGAGGAAGGAGGATTTCGGCCAGTTGAAGGTCAGGTTGGGCTACATAGTGTGCTCCAGGCCAGTCTTGGCTGCATTGAGACTCTGCCTCAACATAACAAAAACAAGGGCTGGAGAGTCAGAGGACCTGGCTTTGAGTCACAGCACCCATATTTGTAACACACTCACCTATTTGTAACTCCACTTCCAGGAGATCTGTGCCTTCCTCTGACCTCTGTGGTACACAGACATACATGTAGGGAAAACATTCATATACATAAAGTAAGTCTGAAAGCAACTAAGGAAAAAAGAAAAAGTTAGTTTTGGCATCACTCAAATGGAAAAGAAAAATCAAAACTGTATATATATAATTCTGAATTCTGGGCCAGCAAGATGGCTAGCCTGATAATCTGAATTCAATCCCTAGAACCTACATAAAGGTAGAATAACTCCTTACATTGTCCTTTGATTATGGCAAATATATCTATTACATATTAACATATAATAACCACTACTAATAATAGTAATACTACTTCTACTAATAATAATGGCAAAACAAAAATTAAGAGTCCTGAACTGTAGCAAAGGTAAAAGAAGATTCCTGTCATTATATCTTACTTTCTTTAAATATATTGAGAGTTTTGAAATGAAACTGATTTTTATGTCGTAGGATTATTCTTTTTAAGGCTTTTAGAAGCACTTTGTTAAGTGTCTAGAAAAGTCCTTAGTAGTTGTTGTTTTGTATTTTTTGTTTTGTTTATAATTATTTTAGGTTTTCAGACAGTGTTACTAGGTAGCTCTGGCTGGTTGCAGATGTAACATGTACTCTATAGACCAGACTGGCTTCAAACTCCCAGAGGTCCATCTGCCTCTTCCTTCCATCTGCTGATTTTAAGGCGTGTGCTACCATGTATAACTTGCTTACTAGATTGTTTGCTTGCTTGCTTGTTTGTTTGTTTTTTGAGACTGGGTTTCTTTGTGTATCCCTGGCTGTCCTAGAACTCTTCTCTGTAGACCAGGTTGGCCTTGAACTCAGAGAGGTCCACCTGTCTCTGCTTTTCATGTGCTGGTATTAAAGATGTGTACCACCACCACCTGACTTAGATTTTTATTTTAGTCATTCTAGTCTAATAAAAATGAACTACCAAGACTCATAATTCTTATCAATGAGAATATCTTCTTCCTCCCCCATTATTTTAGTGCTTACATCATTACACAGATTTTGACAAGAAATCTATTGTATAAGAAACCTTCAGGCCGGGGAGAGTGCATACCCAGCATAGTACTTGCTGTGCAAACATCCAACTGAGTTCAGTGTCCAGCATTGATGTAAAAGCCAGGCATAGCCCCTATGCACACACCTACACTCACGGTGTTTGAAAGTCAGAGACAGGAAGATTCCTGGAACTTGCTGACCAGCCAGTCTAGCCAGTGTGCTGTATCTGTGTTCAGTGGCAGACCTTGTCTCATAAAAATAAGATAGTGAATAACTGAAGAAGATACCTGCTGTGGACCTCTGGCCACATACACACACACACACACACACACACACGAAACCTAAGAAACCTTCGGTCTTTGTTTTTTCAG
Seq C2 exon
ATGCCTGTTCCCATGTTTATTCCATCCTCTATGGATAATGATGAGAAAGCAACTGAGGGCATTGAAGACATTAAAGAGAAACTTGCCACACATCCGTTTGAAGCAGATCTCCTTGAGATGGCAGAAATGATTGCAGAAGATGAAGAGAAGGAGAAAACTTTATCCCAGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042446-Zmym4:NM_001114399:19
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.212 A=NA C2=0.856
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:
ACTCCAAGTGAGCCCCAGG
R:
CTCCCTGGGATAAAGTTTTCTCCT
Band lengths:
286-2099
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: