MmuINT1035871 @ mm10
Intron Retention
Gene
ENSMUSG00000042446 | Zmym4
Description
zinc finger, MYM-type 4 [Source:MGI Symbol;Acc:MGI:1915035]
Coordinates
chr4:126915072-126915665:-
Coord C1 exon
chr4:126915581-126915665
Coord A exon
chr4:126915328-126915580
Coord C2 exon
chr4:126915072-126915327
Length
253 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
3' ss Seq
TCTTTTTTTTTTTTTTAAAGCTC
3' ss Score
9.97
Exon sequences
Seq C1 exon
GAGTATAGTCATGGCCAACAGCAAAAAACTCAAGAGGGGGAACTGAAAATTAGTGCTGTGTTTTCAGTCAGTGGCAGTCCTCTTG
Seq A exon
GTAAGAATCAGACCTGAATGAATGAATTGTATTTATTCTGGCCAACATCAATGAGAGGCCATTTCTACTTGGGTAAATAAAATAGGGTGTCCTCTGTTCATTTAGAATCCTTTATGTTGTATATTCCATAATTAATACTGGGTTCCAAAGTAGCTATAGAAGAGAAAGTACAGATGCATAAAATATAAAATTAAAAAGTAAAATTTTTTGCTTTGAATGTTCTTTTCTTTCTTTCTTTTTTTTTTTTTTAAAG
Seq C2 exon
CTCCACAGTTGACTACTGGCTTTCAGCCTTCTCTGGCATCACCTGGCATGAATAAAATGCTTCCTTCAGTTCCAGCCACAGCTGTTCGAGTTTCTTGCTCTGGTTGTAAAAAAATCCTCCAGAAGGGGCAGACTGCTTATCAGAGGAAAGGGTCTACTCAGCTTTTCTGCTCTACCCTGTGCCTCACGGGATACACAGTTCCACCTGCCCGCCCACCGCCTCCCCTCACCAAGAAGACTTGTTCAAGTTGCTCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042446:ENSMUST00000106108:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.579 A=NA C2=0.200
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF064679=zf-FCS=WD(100=47.7),PF064679=zf-FCS=PU(28.9=15.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTCAAGAGGGGGAACTGAAA
R:
AGTCTTCTTGGTGAGGGGAGG
Band lengths:
297-550
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