MmuINT0179195 @ mm10
Intron Retention
Gene
ENSMUSG00000047003 | Zfp41
Description
zinc finger protein 41 [Source:MGI Symbol;Acc:MGI:99186]
Coordinates
chr15:75616726-75618644:+
Coord C1 exon
chr15:75616726-75616931
Coord A exon
chr15:75616932-75618043
Coord C2 exon
chr15:75618044-75618644
Length
1112 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGC
5' ss Score
7.93
3' ss Seq
GTTCATGCTTTTGCCTCCAGAAG
3' ss Score
7.06
Exon sequences
Seq C1 exon
GGCGGGCTCAAGTGGGCATTGTTAACGGTCGCCCGCCCGCCGGTCAGCCTGCTTACGGCCACGTTCCGCCGGCGTCTGTGCTCGGCACCCATCAGGTACTCTCTGCGTGTGTGCACGGTAGCCCCGACCGGGCGAAGGCCGGCTTCTGAGTCGTTTCTCTGTGGACCACCTCGGCGGTGTTGCAGAGGTCCTTGGAGGCGGGGAAG
Seq A exon
GTGGGCCGGGCTACCTAGCGAAGCCCCTTGTTGCTGGATGCATTGAGCGCCTTATCCTGCCGGCTCCAGCAGCTCCTTGATGGACCTGAGTCCCTAGGTCAGCGGAATTCAACTAAGTTGCCTGAATCACTCGCACCTACTCCTGTGCACAGGCCTGTGAAGAGAGGGGGCAATAAGCTAAGTCGCTGGGGTCTTCTCTGGTTTTAATGACTATTTAAGTTTTCAGTGAGGATGGTCCTTGGTGAGCAGACACAGACACCTGGGTCCCGCTTGTCATTCCTCTCACCAGAGTGATGGTGTTTGAATTGGTACTGAGTGATGCTGCAGACAGGGACTCTCAGGTGTCTCCTGAGCTGTCCCACAAAAGACAAACACTTTCAGATGCTGACATAGAGCAAACAGTCACCTAGCCGCCTGGATCTTGGACTCTGAATCCGGATAAGAATTTTATCTGCTGGGTTAGATATGTGGGTATTTGTCAAATGCTTAGAACAAAATACAGTGTGTTCCCAAAGTGTTTTTGGGAAAGTGTGGGTGCTCTAGATGGAACTGCCAGCAGAGCCCACCCCTTTGGGCCTCTGGGAGTAAAGGGGATGGTGCAGGTTTAGAGATAAAGAGGGGTCACATAGAGAGAGCCTCATCAATACAAGAGGCATCCTTTGGGGGTCTGATGGGGTTTGCTGTGGATTATGAGGAGAGCCCTGAGTTTTCCAGGCTCAGAACCAGGCTGTTGTATGGTAGAGTTACTTCCTACTCCAGGGTGTTTGCACAGTCCCAATGTGGGCGGGTAGAGAGGATAAGGAAGAACGGGGAAGGTTCTGTTTGGGGAGGTGGAAAATGGCCATCGGTCCATGATGGCTATGGCTTTCTCTGGGATGAGTGAAAATCTTGTCTTCAGGCCCAGGAGTGTCTGTGGCTGAGTGAGAGAGTCACTCAAAGAGATGAGCATACAGTGGACCAGAGGCTCTGAGCTCAGCTTATAGGCCTGGGGCTAGAGCTCTGGGGAGTCCACTTTAGTCTGAGGGGCTCATCATGTGAGCAGCTGGAAAGACAGTGGAGCTGCAGAGAGCTAAGAGCTGCCTCTGACCTGTTGTTCATGCTTTTGCCTCCAG
Seq C2 exon
AAGCAAGACGACCGTGGTTCTGTCTGCTTGATGCAGCTTCGTACGCAGGAGCTGTCCCTGACAGCGAAGTCCCAGAGAAGGAGCCAGGCAGCCACTGTCTGAAAACCCTCAGCCTTCCCTGGCCTCCAGGGGGGTTTCCTGCTTCCTAAGAGCAGCAATGGAAAAGCCTGCAACTAGGAAAAAGAAGAGTCAGGCCCCAAAGGAGGAGGCAGGTGCGCAAAAGGCCACTGTCAAGGGAGAGAAAACATCAAAGGGGAAAAAGGCAACCAAGAAGCCAAGAAAGCCCCGCAGACCCCGAAAAGAACCTGTCCTGAGCCCCGAGGACGAAGCACATATCTTTGATGCCTTCGATGCCTCGTTTAAAGATGACTTTGAGGGTGTCCCCGTGTTTGTCCCTTTTCAGAGGAAGAAGCCCTATGAGTGTGGTGAATGTGGACGGATCTTTAAACACAAGACAGATCACATTCGCCACCAGAGAGTTCACACTGGAGAGAAGCCCTTTAAGTGTGACCAGTGTGGGAAGACCTTCAGGCACAGCTCAGATGTCACCAAACATCAAAGAATTCACACCGGTGAGAAGCCCTTTAAATGTGGGGAGTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047003:ENSMUST00000161752:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=12.1),PF134651=zf-H2C2_2=WD(100=13.1),PF134651=zf-H2C2_2=WD(100=13.1)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGTTTCTCTGTGGACCACCT
R:
GGGCTTTCTTGGCTTCTTGGT
Band lengths:
342-1454
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