MmuINT1035875 @ mm10
Intron Retention
Gene
ENSMUSG00000040123 | Zmym5
Description
zinc finger, MYM-type 5 [Source:MGI Symbol;Acc:MGI:3041170]
Coordinates
chr14:56796604-56797830:-
Coord C1 exon
chr14:56797668-56797830
Coord A exon
chr14:56796811-56797667
Coord C2 exon
chr14:56796604-56796810
Length
857 bp
Sequences
Splice sites
5' ss Seq
GAGGTCTGC
5' ss Score
3.9
3' ss Seq
GAAATTTTGTTTTCTTTTAGGTT
3' ss Score
10.91
Exon sequences
Seq C1 exon
AGATTCTCCTGTGAGAACCACAACTATTGTTCCTCCAGTGGAGTCAAGCAAGTCCTTACAAGGATTTTATAATGCATCGCTATCTCCCTATGAAAACTGCCAGAGTCTTAGGAAAGAAGTTTTTACTAAGTCAAGATGTATAATCTGTAATAAATTAGGAGAG
Seq A exon
GTCTGCTCTTCATACTGTTACTATTTAGACTCATAGAAATGTTAATTTTTAAGTGCTAGTGTAAGCTCTGCCATCTATCCAATGTCCATATCCTAAATATTCAGATTGGAAGGACTTTAAAAGTTTTACTTCTGCGTTTTGGTGAACACCTTTAATTCCAACATTTAGGAGGTAGAGGCAGGCAGATCTCTGTGAATTTGAGGCCAGCCAGCCAGTCTATACATAGTGAGTTCCAGGACAGACAATAAATACTATATACTAAAGAGATTTCCCCCCCCCCACACACACACACACACACACACACACACACAATTCTCATAGTGACTGTTTCTTTGGAATTAGTTGTAGCCGGGCATGGTGGCGCATGCTTTTAATCCCAGCACTTGGGAGGCAGAGGCAGGCAGATTTCTGAGTTCAAGGACAGCCTGGTCTACAGAGTGAGTTCCAGGACAGCCAGGGCTATACAGGGAAACTCTGTCTCGAAAAACCAAAAAAAAAAAAAAAAGAATTTGTTGTAATAATTCAGTAGTTTCAGGATAATGACATATCCTATAGGAGTATGTGGAACAAATGGTTTGATAAATTTTCAAGAGGAGTAACCATACATTCAAGCAGTCCTATGTTTTATTTACCTTGTCCCTGGTAGCTAAATCGGATGTTGTGTAGCTTTGGAAGCCATTCAGATCCCAAAGGACATAAATTTACCTGTTACAGCTTTCAAACCACATTACTGCATATTCTAAGTGTAGATAATGATTCCCTTCATCTGCCTCCCAAATACTAATATGAGAAAAGTCTAAATACTATAGGGCAATAAATTGTAAAATACTGTCTTAAGAAATTTTGTTTTCTTTTAG
Seq C2 exon
GTTCGCCATGAAATCAGTGTTAACAGTATAACACATAAGCTGTGCAGTAATAATTGCTTTAATGAATACAGATTGACGAATGGTCTAATAATGAACTGCTGTGAACAGTGTAGCAAGTATATGCCCAAGAGTACTGGGCACAGCATTCTGATAACAGGTCAGCAAAAGAGATTCTGCTGCCAGAATTGTGCTGACGAATATAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040123:ENSMUST00000173954:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.055 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF064679=zf-FCS=PU(40.0=29.1)
A:
NA
C2:
PF064679=zf-FCS=PD(55.0=31.9),PF064679=zf-FCS=WD(100=60.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCACAACTATTGTTCCTCCAGTG
R:
TTCGTCAGCACAATTCTGGCA
Band lengths:
345-1202
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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