MmuINT0179195 @ mm9
Intron Retention
Gene
ENSMUSG00000047003 | Zfp41
Description
zinc finger protein 41 [Source:MGI Symbol;Acc:MGI:99186]
Coordinates
chr15:75447115-75450121:+
Coord C1 exon
chr15:75447115-75447458
Coord A exon
chr15:75447459-75448473
Coord C2 exon
chr15:75448474-75450121
Length
1015 bp
Sequences
Splice sites
5' ss Seq
TAGGTCAGC
5' ss Score
4.81
3' ss Seq
GTTCATGCTTTTGCCTCCAGAAG
3' ss Score
7.06
Exon sequences
Seq C1 exon
AGAGCGGCACCAGAGGGGCGGGCGCCTTTAGGCGCGGGAGTGGCGGGCTCAAGTGGGCATTGTTAACGGTCGCCCGCCCGCCGGTCAGCCTGCTTACGGCCACGTTCCGCCGGCGTCTGTGCTCGGCACCCATCAGGTACTCTCTGCGTGTGTGCACGGTAGCCCCGACCGGGCGAAGGCCGGCTTCTGAGTCGTTTCTCTGTGGACCACCTCGGCGGTGTTGCAGAGGTCCTTGGAGGCGGGGAAGGTGGGCCGGGCTACCTAGCGAAGCCCCTTGTTGCTGGATGCATTGAGCGCCTTATCCTGCCGGCTCCAGCAGCTCCTTGATGGACCTGAGTCCCTAG
Seq A exon
GTCAGCGGAATTCAACTAAGTTGCCTGAATCACTCGCACCTACTCCTGTGCACAGGCCTGTGAAGAGAGGGGGCAATAAGCTAAGTCGCTGGGGTCTTCTCTGGTTTTAATGACTATTTAAGTTTTCAGTGAGGATGGTCCTTGGTGAGCAGACACAGACACCTGGGTCCCGCTTGTCATTCCTCTCACCAGAGTGATGGTGTTTGAATTGGTACTGAGTGATGCTGCAGACAGGGACTCTCAGGTGTCTCCTGAGCTGTCCCACAAAAGACAAACACTTTCAGATGCTGACATAGAGCAAACAGTCACCTAGCCGCCTGGATCTTGGACTCTGAATCCGGATAAGAATTTTATCTGCTGGGTTAGATATGTGGGTATTTGTCAAATGCTTAGAACAAAATACAGTGTGTTCCCAAAGTGTTTTTGGGAAAGTGTGGGTGCTCTAGATGGAACTGCCAGCAGAGCCCACCCCTTTGGGCCTCTGGGAGTAAAGGGGATGGTGCAGGTTTAGAGATAAAGAGGGGTCACATAGAGAGAGCCTCATCAATACAAGAGGCATCCTTTGGGGGTCTGATGGGGTTTGCTGTGGATTATGAGGAGAGCCCTGAGTTTTCCAGGCTCAGAACCAGGCTGTTGTATGGTAGAGTTACTTCCTACTCCAGGGTGTTTGCACAGTCCCAATGTGGGCGGGTAGAGAGGATAAGGAAGAACGGGGAAGGTTCTGTTTGGGGAGGTGGAAAATGGCCATCGGTCCATGATGGCTATGGCTTTCTCTGGGATGAGTGAAAATCTTGTCTTCAGGCCCAGGAGTGTCTGTGGCTGAGTGAGAGAGTCACTCAAAGAGATGAGCATACAGTGGACCAGAGGCTCTGAGCTCAGCTTATAGGCCTGGGGCTAGAGCTCTGGGGAGTCCACTTTAGTCTGAGGGGCTCATCATGTGAGCAGCTGGAAAGACAGTGGAGCTGCAGAGAGCTAAGAGCTGCCTCTGACCTGTTGTTCATGCTTTTGCCTCCAG
Seq C2 exon
AAGCAAGACGACCGTGGTTCTGTCTGCTTGATGCAGCTTCGTACGCAGGAGCTGTCCCTGACAGCGAAGTCCCAGAGAAGGAGCCAGGCAGCCACTGTCTGAAAACCCTCAGCCTTCCCTGGCCTCCAGGGGGGTTTCCTGCTTCCTAAGAGCAGCAATGGAAAAGCCTGCAACTAGGAAAAAGAAGAGTCAGGCCCCAAAGGAGGAGGCAGGTGCGCAAAAGGCCACTGTCAAGGGAGAGAAAACATCAAAGGGGAAAAAGGCAACCAAGAAGCCAAGAAAGCCCCGCAGACCCCGAAAAGAACCTGTCCTGAGCCCCGAGGACGAAGCACATATCTTTGATGCCTTCGATGCCTCGTTTAAAGATGACTTTGAGGGTGTCCCCGTGTTTGTCCCTTTTCAGAGGAAGAAGCCCTATGAGTGTGGTGAATGTGGACGGATCTTTAAACACAAGACAGATCACATTCGCCACCAGAGAGTTCACACTGGAGAGAAGCCCTTTAAGTGTGACCAGTGTGGGAAGACCTTCAGGCACAGCTCAGATGTCACCAAACATCAAAGAATTCACACCGGTGAGAAGCCCTTTAAATGTGGGGAGTGTGGAAAAGCCTTCAACTGTGGTTCTAACCTTCTAAAACACCAGAAAACGCACACTGGAGAGAAACCTTATGGCTGTGAGGAGTGTGGAAAATCCTTCGCCTACAGCTCCTGCCTCATCCGGCATCGGAAGCGTCATCCGAGGAAGAAGCACTGAGCAGGGCGGTCTACAGCTATGGATCCTTGTCAAACACCTGATGATGGTCCAGAGGTCTTACGCAGTATGCTCATCCAGCCACCCATCTGTCATTGAGAGGAAAATCTACCCATCAGACATGAGAGCCCACAGAGGCTTTCTGCCCTTCGAGTCTTCACTTAGTAGTAACATGGTGCTTCCCGGAGCTTCCTGAAGCTCCAGCCATTTTCCAGACTACTTTATGTTACTCAGGGCCATCTTTGGAACAGTTTTGGGTCGCTGAGAACTTTGTAGAGCTAAAGAGACACCCCTGTTGGCAAGGGCCACTGCCTTCCTTTGCTGCCTCTGTCTGCACCAACCACGGTGCTTTTGTCTCTTCTCTTGAAGACTTCTGACTCTGTATGCTCAGCCCCATGCTGTCTGCTAGGGCGAGGAACCCTGAGGTGGATGACAGGCAGCATTCTGACCAACTCTGAGGACAGCACCAAGTCCTGCTTGCTCATCTCTGTGCAGCTGACTTCAGTGATCCTAGAGTTTCACTCTTCTGGCTGAAACCACAGTCTTTGAGCTCAACCCTTGGGCCTAGAGCTGGGTTACACTGCTTTCTCTTGTCCCAGCCACATCGTAGACAAGTAGCCTGGATCCATCCAAAGCCTCAGCAGACCCTGGCACCCTGGCATAGTGGCAGGTTTCTTAGGCTAGGCCTTGTAGCTCCAGGGTGCCATCAGTAGCTTCTGCCCACTGCACCTTGAAAAACAACTGTGGCCCCACCCCACAGCAGCCTGCCATTCCGGTCAATTCCACTTCCTGCTGGTCAGCAGGGCAAGACCACGTGACTCTGTCTACTGTCTGCCCCACGATGATGCTGTGTGAGGTCTGTGTTCTAAAGACAGCAAGTGACTGCTGACCAGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047003-Zfp41:NM_011759:1
Average complexity
IR-C
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=8.5),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
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGCTCAAGTGGGCATTGTTA
R:
TGCGTACGAAGCTGCATCAAG
Band lengths:
347-1362
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: