MmuINT0180515 @ mm9
Intron Retention
Gene
ENSMUSG00000042446 | Zmym4
Description
zinc finger, MYM-type 4 [Source:MGI Symbol;Acc:MGI:1915035]
Coordinates
chr4:126577849-126579937:-
Coord C1 exon
chr4:126579787-126579937
Coord A exon
chr4:126577993-126579786
Coord C2 exon
chr4:126577849-126577992
Length
1794 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
TTCTTTCTTCCTCTTTTAAGTAG
3' ss Score
6.76
Exon sequences
Seq C1 exon
ATGGCCAAATGTGATGGTTGCAAGAGACAGGGTAAACTCAGTGAATCATTGAAATGGCGAGGTGACATAAAACACTTTTGTAACCTGCTTTGCATCTTGATGTTCTGTCATCAGCAAACTGTATGTGACCCACCTTTACAAAACAATGCAG
Seq A exon
GTAAAATGCAGTGAAGAGTAAGTGAACTCTTGGGTTTGTTTTTGTTTTTTGTTTTCCGAGACAGGGTTTCTTTGTGTAGCCCTGGCTATCCTAGAACTCACTCTGTAGACCAGGCTGGCCTCGAACTCAGAAATCCGCCTGCCTCTGCCTCCCCAGTGCTGGGATTAAAGGCGTGTGCTTACTTGTACTAGGAGCTGACTCCTTTACTTGTACAGATTAGAATATATAAATGGTCAGTAATTTTATGAAATACAAATCTTACTATGTTCAAATAATATTAACAAGCTGGGCATGTTAGCGCATGCCTTTAATCCTAGCACTTGGGAAGCAGAAGCAGGCAGATCTCTGTGAGTTCAAGGACAGCTAGGATTGCATAGAGAGACCCTGTCTCAAAACAGCAGCAGCCACAACAACAACAAAACTAAACAAATACCATTAAGATTTAAATAATTTATTGAATACCTGAAAGCAAATAATTTTATCTATTTTTATCTATTTATCTATCTAGACAGGATTTATCTGTGTAAGCTGTCCTGGACTAGGTTGATCTTTAATACTCATAGAAATTCATTTGCCTCTGCCTCTCTTAAATTCTGGGACTAAAACTTGCACTGCCACACCTGGCAGGCAAATTTTATTGTAGCTTTCTCTCAGAATACTGACTGAGCCCTGCTCATTTTCTGAAAAAGAGTGGTATTTACAGTTTTTAAATTCTGTATACACCTTGGCTTTCATAATGAAAGATTTTAGATTGCTTATAGCAAATGAAGACCGAATCAAATGAACCTTTAAATATAACACACACACACACACACACACACACACACACACACACATCTATATATGTGTGTTATATAGATATAGATATATATTATATACATATATATGTAATATATATATTACATACATACATACATACACACAATCTATCTAAGGGAGGTGATCAAGACTTCAAGGAGAGCATGAGCCATACAGTGAGTTTGAGGCCAGCCTAGGTTACACAGTGAGACCTGTGTCAGTCAACAACCAACTGTATTCATATTTAGGGCATAAAAATCTGAGAAGGGGGGCTGGAGAGATGGCTCAGTGGTTAAGAGCGCCGACTGCTCTTCTAAAGGTCCCGAGTTCAAATCCCAGCAACCACATGGTGGCTCACAACCACCCGTAATGGGATCTGCCACCCTCTTCTGGTGTGTCTGAAGACAGCTACAGTGTACTTACATATAATAATAATAATAATAATAATAATAATAATAATAAAATAATCTTTAAAAAAGTCTTAGAAGGTTTATGATTTGGAGCACAAATTAGTGCTGCTCTGAGACCCAGCAGAGTCTAAGCATAGTGCCCTTGTGAGGAGAAGCAAGGGCATGCTCTATAAGCTTCTTAACAGAGTCCTTCACATACGAAGGTAAGATTTCAGAAACATCTTTGTCTTATGTTCTCATTAAATTTACTTTGTGATTGTCATTGGTTGGAATTGTGCCTTTGGACATTTTTGTTGGTTTTAAGTGAGATTGGTACATTTCCATACAAAGATAAAGTACAAGAGACTTTGAGGTTTCATTAATCAAAAACTAGCAAACAATGCAGTAATTTAAGTGGCAAAGACAAAACATTACACTTGATCTTATCCAAAAGGCCAAGAAGTGGTAAAGCAAGCCCGTTATTTCTGAAGTTTCTCTGCTCCGTAGCAACTTATTCAGTTTTGGAAACTTTGGTCTCCTTTGAGCTGTGGATTTCTATGTAAAACAAATAAATTATACTAACTTTCTTCTTTCTTCCTCTTTTAAG
Seq C2 exon
TAGCAAGTATTTCCATGGTTCAAGCTGCTTCTGCAGGGCCTCCGTCCCTCAGAAAAGATTCAACTCCAGTCATTGCTAATGTGGTATCTTTAGCAAGTGCTCCTGCTGCCCAGCCCACAGCAAACACCAACAGCGTCTTACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042446-Zmym4:NM_001114399:15
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.122
Domain overlap (PFAM):
C1:
PF064679=zf-FCS=PD(91.9=66.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGCCAAATGTGATGGTTGCA
R:
CTTGTAAGACGCTGTTGGTGT
Band lengths:
294-2088
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: