MmuINT0118747 @ mm9
Intron Retention
Gene
ENSMUSG00000025764 | Phf17
Description
PHD finger protein 17 [Source:MGI Symbol;Acc:MGI:1925835]
Coordinates
chr3:41395605-41397876:+
Coord C1 exon
chr3:41395605-41395762
Coord A exon
chr3:41395763-41397688
Coord C2 exon
chr3:41397689-41397876
Length
1926 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
3' ss Seq
TTTGTTTTCTTATTAACCAGGGT
3' ss Score
7.91
Exon sequences
Seq C1 exon
GTGTTTAGGACCGACCTGATCACTGCCATGAAGTTGCATGACTCCTACCAGCTGAACCCGGATGACTACTACGTGCTGGCTGATCCCTGGAGACAGGAGTGGGAGAAAGGGGTCCAGGTGCCTGTGAGCCCAGGGACCATCCCACAGCCTGTGGCCAG
Seq A exon
GTAGGCACCCTGGATAGACGCGTGCTTCTCTGCTCTCCTCCCTGCAGGCATAGAAGCTGAGAGTTAGCGCTGTAGTAACATGAGGCCTCACAAGAGGCAGAAATGTAGAAACTGTTCAGGCGCTGAGGGCGGTGAGTCAGAGGGCAGTGGCCTCTGAATTTAGCACATTATCGCAGGGGGTGAGCCCTCTTACTGGAGAAGAGAAGGTCCAAGATGTTTTTGGGAATGACCGACTAGGCGAAGTCTGATGTTACTGTCTGTTTCTCTCTGCATTCTATGTCACTTCACTGAGTGGCTTAGTGGGAGCCGTGGTGGCCTTGGTGCTTCGGGCAGTGGCTGATTGTATTTTAGGAGCTGACAGTGTCCGATGAGGAATTTGAGCTGTGGACAGGCTCTTTGCAGACGCTGGTGTTTCCTCTTGATCTCCTGCCGTGTCGCTCACCTCTCCCAACATGTCCTCGATCTTCCTTTGGGACAGGCTGTGTCGAGTTGGTACCTTTTTTCCCCACTTTTGCATATGAGGATGGAGTGCCCGATAGCTCTGCCAGCATCTGGCTGGCTCCTTGCTGTGTGAAATAGCCTCTCTTACCATGGATGAGTATGGACTAAATTCACTTCTTGGCCCTTAACTCCTTAGACACTTGATTGGTTTGATTACCATCATTTTGGGATCTCTGTTCAAATTATATGATAGTATACTATGGCTAGACAGGCATAGGTGACCACCAGGAGTCACCTGCTTCTTCAGATGAGGGTCATGGCCTGTGAAGCGGGTCTCAGGGCGCACAGGATGGGGATGGTCCCTTTTGGCCAGCACCGGCAGGCTGTCAGTCTAGGAAGCCGTGCCAAGGCAGGATGAAATGACTTCATAATAGATAGACTGGAGCGTTTCACTTGATACCTGTTCTTGCTCAAGCAGGAGAAATACATCCAGTTTGTCTGCCCATCTCTGTCACACAGATAAGTTCTTCCTGTCAGTTCCAGGGTGAATAACGTATAAACTCTGGGCATCCTGTTGGTGTGAATGTATGTGGTCAAAACCAGACGTGGCAGGACTGTGACCACAGAGCCTCTGCTGGGCTCCTGGCCCGAGCTGATTTGCTCCTTTTGTGCTGTCCCTAGTCTGGCTAGGGTGAGGTGGAATTCTCCCGTGCTCACAGCTTGTAAGGGGGTGGTGGTAGAGGAATTGTCTGGGGCCATATGTTCATGGACCATGGGCTCTGGCGCTTAGAATAAAGGAATGGCAACAGCCCAAAGTTCTCCCTCAGTCTTTTTGGAAGGTGAGAATTCAGAGGTGTCCCTTGTGGTCCTCAGCGTGTGCTGTGCACATCCAGCTTGTGGCTGTCCCTGCCGTCTCTGTTCCTGAGAACTCAGTGCTTAGCAAGTTCGTCCCTGTTCTGACAACTTCCGGGGGGCAATGAGCAAGCACCAATAATGGAAAGGGATTTAGAAACCAACCCTTGAAATATCTTTTCTTTTAAAATAAATTTATTTATTTATTTATTTTGTTTTTTGACACAGGGCTTCTCTGTATCGCCCTGGCTGTCCTGGAACTCACTCTGTAGACCAGGCTGGCCTCGAACTCAGAAATCTGCCTGCCTCCGCCTCCCAAGTGCGGGATTAAAGGCATGCACCACCGGTGGCCGGCTTAAGTTTATTTGTTGTAGTTTGGGAGCAGACTCTGTTGGAGATGTGGTAGGGTGTTGTGCTGGGAAGGAGATGGCTGTGGAAGGCTGCAGCATCTGCTTCCATTCTGGGTACTTTGAAGATTTCTAGCTGAGGTGTTGCTCTCATTTGGTTTCAAATTCTTAGACTATATGAACATAGGGATGGTCTGGCTTGGGGGTTGGAGGAGGAAGTTGCCCCTGACAGTTTCTTCTACAGGACAGAAAGGGTAATCTGGCTGTTTGTTTTCTTATTAACCAG
Seq C2 exon
GGTTGTGTCTGAAGAGAAGTCTCTCATGTTCATCAGGCCCAAGAAGTACATCGCGTCGTCCGGCTCTGAGCCCCCAGCGTTAGGCTACGTCGATATCCGGACTCTGGCAGACAGTGTGTGTCGGTATGACCTCAATGATATGGATGCTGCGTGGCTGGAAGTAACCAATGAAGAATTTAAGGAGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025764-Phf17:NM_001130186:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.294 A=NA C2=0.016
Domain overlap (PFAM):
C1:
PF105134=EPL1=FE(34.2=100)
A:
NA
C2:
PF105134=EPL1=FE(41.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGACCTGATCACTGCCATGAA
R:
CCATCTCCTTAAATTCTTCATTGGT
Band lengths:
335-2261
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: