MmuINT0180529 @ mm10
Intron Retention
Gene
ENSMUSG00000042446 | Zmym4
Description
zinc finger, MYM-type 4 [Source:MGI Symbol;Acc:MGI:1915035]
Coordinates
chr4:126861939-126865626:-
Coord C1 exon
chr4:126865497-126865626
Coord A exon
chr4:126864318-126865496
Coord C2 exon
chr4:126861939-126864317
Length
1179 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGG
5' ss Score
9.33
3' ss Seq
TTGTTTCCTCCTGTGGATAGTTC
3' ss Score
7.26
Exon sequences
Seq C1 exon
ATAAGGTAACTATTGGCAAGAGGAAACGAAATGAAGACGACGAGGCCCCAGTGGGAGTGGAGATGGCAGAGAACACTGACAACCCGCTGAGGTGCCCGGTTCGGCTTTATGAGTTTTACCTGTCAAAATG
Seq A exon
GTAAGGGGCTTTTCTGTGCTCTGCACACAGAGCGCTCATACCCAGCATAGCTGGCACTTCATTCAAGTGACTGGAAACTAGAAGCACAGCTGACTGTGATCCAGGGTCTGCCTCTGTTCATGTTTTCTCCATCCTTCTATCTGCCTGGATTTGGAACTAAGAAGCCAGCCATGTTATCTTAGTGTTTTTCTCCTAAAATTTCTCCAAGGGGGGGGGGGGATCACATTTTATTTGACCTTCTGACACACTGTTGTTCATCCTGTATGTAGAGTCTTTTTTTTTTTTTTTTGTTTTTTTGTTTTTTTTCGAGACAGGGTTTCTTTTTGTAGCCCTGGCTGTCCTGGAACTCAGAAATCTGCCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAAGCGTGTGCTATATAGATGGAGTCTTATCTATAGTGATTTATTTTTTGTGTAGAAAACAAATTCTGAGGCTGGTTTTTGGCTAAAGCCTTCAAGGAGGAGAAAGCATTTAAGAAATTTGAGTTTTGTATGTTAACGAGCCAACATCCAAACAGGCCCATCCCCAAGCTGGGAGTATATACTCTCCCCTTAGCCACCAACAGTCTGAGTCCAGAGTTTAAAGTTTTGAATTAAAGAAATTCTGATTATAATGTATGACTCACACTAAAAGTACACCTTTTTGGTCAAAGAAATAATAGCATCGAGTGACCTATGCAAATTGGCCCATTTGAAGTGAAGTACAGGATTTATGCTTCTCTCTCTCTCTCTCTCTTCTCTCTCCCTCCCTCCCTCCCTCCCTATCTCCCTCCCTCCTTCCCTCCCTTCCTTTCTTCCTTTCTTTCGAGGCAGGGTTTCATGTTTCCCAGGCTGGGTCTCAAACTTGACTTGTAGCCAAGAATGACCTTGAACTCCCCAGCCCTCATCCCCACCTTCCAAGGATTAGAACTACAGGTGTCTGCCCCACACCCGGCTGGGCTTTCTTTATCTATCACGGTCTACCACTTTCAGCTCGGTTCTGGGCCGCCCTGGGAGGAACATGCATGTTATGCCTGTGGTTCTGGTGTTACTGACAACGTGAGACGGGATGGGAAGAAGTTCAGAACTGTTACCTAAGAAAGGATGCTGTGTATTTCCCGTGTTCCCATCTCAACTTTGTTTTCTCTCTTTTGCTTGTTTCCTCCTGTGGATAG
Seq C2 exon
TTCTGAAAGTGTGAAGCAGAGGAGTGATGTGTTCTACCTTCAGCCGGAGCGCTCCTGTGTTCCTAACAGTCCCATGTGGTACTCCACATTCCCCATAGACCCTGGAACCCTGGACACCATGTTGACGCGCATTCTCATGGTGAGGGAGGTACATGAAGAACTTGCCAAAGCCAAATCTGAAGACTCTGATGCTGAATTATCAGATTAACATGAAGGAAAGCTCCCGTTTTCATGCACACTGGTATGCACCAAGCTGTGATGCACTCAGCTGTTGGAAAGATGTTGAAATGCAAGTCCTCTTGACTTGCTTGTTTGGTGGGAAAAACGGTGGCTCTGAGCCGTAGTGGACTGCAAATGTAACCTGAGGGGAGAAGGGTGAGTGGATTGGGAGGGAGAGGAGTGGTCATAGACATCTTCGAAAGACTAACCAGTTTCTGAGTGGTGCATAATCTTATTTTCTTTGGGAATAAGAAATTGTGGAATATTTTTAAGGAAAACTGTTGTATAAAATTCTACCATAGTAACCTTAGTTAGAAGGGGTAGCTTTGCAGTGAGACCCTGGCTGCAGTAGGCTACTTGAGCAAGCTGTCCATGAAAGTCAGGAGAGGTCACTGCACAGCTGAGAGTGGCATCAGATGAGGACAGGGAGACTCAGCCTGGAAGATCCAATAAAAATACTCAAGTTTTTATAAAAAAGATAGTGGTCTGGATTGATTTTCACTGCCAACCTACTTATGTGAAGGATAGAAGCCTTTAGTCTTTTAACTGAAGGCCCCTCACATCAGAGGACACGCCCTTCATTACTGTTAGTGAGCCCCTTTTCATTTAGGGTCTTGCCTTCTCAGCTGTGGGTGATTTAAGGTAAAAAGGATGATATTTCAGAAAATAACTATGTACACAGAAAATCTGTGGAGCTCATTAGACCCTGGTGTCTTGAAGTATTTATAGAAAGCCCACTAAAATGCCCGCTTCTCTGGGTGCTGCTGTCTCCTGGCCTCAGCTGGCTGCACAGAAGTGGGGCCTCCCTTTGTGTCCAGTTTTCCCCATGGCATCCTTTCTTCCCTGTCTTACTTTCCTGTCCCAAATGATGCTGCTTGTTCTTTGTCCCAGCTTCTAGAGGCCCTTGTCATTTCAAAAAGAATAATCTGTCTCCACAATTCTGACAAATGTGTGGGCGATCCCACAAAGACACAGTATTATGTAGCTGTCCGAGTTACGGTAGGGAAGATTGCAGTAGGTTCCTGTGTAAAAGCATTTGGAAGTTGACCTTATTGCCCCAGGGAACTTGCAAGTTAGGAATTGTGGGGCTGGAGTCTGAGGTGACTGACCTCACACATCCATGCGACCTTTCTGCTGCTGTATTCCAGACTCTAGCTCGCACAGGTCTATGGGAAGCGCAAGGCACAGGTGTGTGTGACATTACCAGGTGTCTCCCTCATCTCCATTCTCAGTTTCTTTCCTACAAATTTTGAATCAAGCTTTTAATAATGTTGGATAATTACTGAGCTTCTTTAATTGACGTTAACTTGAGCTTACAGCAGACCTGAGAGAAGTCATAAGCTTCTCCAGACTGTCACCTAAGACTTCAGTGTGTCCCATGTTATAGGTGGGAGTAGCAAGTTGGTTGTTTTGTTTTAAACAAATAAAGGTCACTTAAATACATCAGAACTTTAAAATGGGCCTTTGACGTTGTGTACTTAGTGGTTCTGTCCCTCTGCTTGTAACAAATATCCTTTTTGTTACTAAGAATTATGTGAAAGAAGTAATTCTGCCCCAGTCTGTATGATTAACTCCATCTGTGCTGTCATTTCTGACGGGGAAACTTCTTCCTTCCAGACCTTGATTGATCGGAGGGAAAGCAGTTGGCCTGTCTGATAAGTCACCAATAAACCATCCAAAACACCAGGTGTCATCCTGCTGTATCAGTTCTGATTTGTGTGAACACTAACATTTCCCATCTAGAGTTGTATGAAAAACAAATACTGTTAGCTTAGTATATAAATTGATATAAAATACCAAAAAGAAAAAAATGTATCTTTTAAGAGAACAACCACTATCCAGATAAACGACTGTATCGGGCTTCAGCTGCATGTTAGTGCAGGGGCTTCAGACCCTAAACTAATGTTAAAAACTGGTTGATCATCAATCATTCCTCCTGAGTGTAGCTGTTTGCTGTGTCAAATCATTTGTTTTTTTTATTTTGTTAAAATTGTGTAAAACCATACTTACTCCTTCCTCCCTCTAGGGGGAGTGAGGAACAAACCCAACAACTAGCACCTGAGCTCGGCCTGTCCCGTCCTTGGTCTCTGTCTCTGGATTTTCTCTTTGCAGGCACCACAGAACTATTCCCTTAGAATAAAATAGTATATTTGTATTTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042446:ENSMUST00000106108:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.534 A=NA C2=0.203
Domain overlap (PFAM):
C1:
PF120123=DUF3504=FE(24.7=100)
A:
NA
C2:
PF120123=DUF3504=PD(27.0=67.1)
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:
ACGAAATGAAGACGACGAGGC
R:
TGTGCATGAAAACGGGAGCTT
Band lengths:
343-1522
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