MmuINT0118660 @ mm9
Intron Retention
Gene
ENSMUSG00000024193 | Phf1
Description
PHD finger protein 1 [Source:MGI Symbol;Acc:MGI:98647]
Coordinates
chr17:27073999-27074835:+
Coord C1 exon
chr17:27073999-27074079
Coord A exon
chr17:27074080-27074224
Coord C2 exon
chr17:27074225-27074835
Length
145 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGT
5' ss Score
8.83
3' ss Seq
GTTTGTCCTCTGTCTTCCAGGTC
3' ss Score
12.11
Exon sequences
Seq C1 exon
CAGCCCTATCCGGATGTTCGCCTCCTTCCACCCTTCTGCCAGCACTGCAGGGACCTCTGGGGACAGTGAACCCCCAGATAG
Seq A exon
GTGAGTCTATCCCGTCGACACCAGTTCCCTCCTTTCAGGCTTTAGTCTCTGAAGCCCAGACTAGCATCAGTCCTGCCCGCCCTCCTGCCACCCACCCACATCTCTCAGGCCTGTCTGGTCTCACTGTTTGTCCTCTGTCTTCCAG
Seq C2 exon
GTCACCTCTGGGACTTCACATTGGCTTCCCCACAGACACCCCTAAAAGTTCACCCCACTCAGTGACGGCCTCATCTTCCTCGGTCCCAGCCCTGACCCCAGGCTTTTCCAGACATTCACCCCCTTCTCCCTTGTGCCGTAGTCTGTCTCCGGGGACTGGGGGAGGAGTCCGAGGTGGGGTTAGCTACCTGTCCCGAGGGGACCCTGTGAGGGTCCTTGCTCGAAGAGTGCGGCCTGACGGCTCTGTGCAGTACCTAGTTGAGTGGGGAGGGGGGGGCATCTTCTGACAGCCTGCTTCTGCTCCCCTCCCCATTCACACACTGGCACTTTCATGCCCTGACCTCTGACCTCACCTACAGCTGGGATGTACCTGGAGAGATGGGGAGTGGTTCTCCCTCCTGCCCAGGCTGGAATCCAGGGGAGTGAAGAGGTCCTCTTCTCTGCCCCTTCATGACTCCTAATGCCCCCCCTCATTTCCTTTGATGTTATTTTGTTACAGCTTTTGAGATAATTTTTTAAGACTATTTAACCCCTGGGATTAGAGATTGGGGGGGGGGGTTTGGGTGGTCCAGGATTCCAGACTGTATGACTGTAATAAAGATAAATAAACCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024193-Phf1:NM_009343:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.964 A=NA C2=0.716
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF140611=Mtf2_C=WD(100=43.8),PF0038519=Chromo=WD(100=26.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
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:
GGGACAGTGAACCCCCAGATA
R:
CTCTTCGAGCAAGGACCCTCA
Band lengths:
249-394
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: