MmuINT0118686 @ mm9
Intron Retention
Gene
ENSMUSG00000037791 | Phf12
Description
PHD finger protein 12 [Source:MGI Symbol;Acc:MGI:1924057]
Coordinates
chr11:77796318-77797699:+
Coord C1 exon
chr11:77796318-77796879
Coord A exon
chr11:77796880-77797517
Coord C2 exon
chr11:77797518-77797699
Length
638 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
CCGTCTGTATGTGTGTGCAGCAA
3' ss Score
7.28
Exon sequences
Seq C1 exon
AAGTGCGCGGCAGCCGGGACGCAGACGGCAGCGGCGGCGAGAGGCGGAGCCCGGGGACCACCCCCCATCATCCTCCCCAGAGTCACCTCACGAACCACAACCTCACCTAACCTCTCACCCCCCCCTCCGGTCCCCCAAGCCCGGGATGGCAGCGCCCGCTAGCCTTCCCGGCCGGACCAGCGGTCGCCAGCGCCAGCTTTAGCCTGTGGGCCTAGGCCCCCGCCGAGGCCTGACCCCCGGAGCCGGGATCCACTGTGCAGCCAGCCGCTGGGCCGGGGCTGAGGGGTTGCTCCCCTCTCGCGGCCCGTGGGGAGGACGCTGCCGTCCCAGGGACTGGGGGCCGGGGGGTGGGGGGGAGCCAGGGCGAGGAAGTCGGAACCTGTGTTGGGAAGAGAGAAGGGGACCGGGGGTCAGAGGTGCCCCCTTCCCCTCCTCCCCCCTCCCCCCGGGGCTGGGGGGGCCGGAGCAGAGAGCGCCCAGCCCGAGAGGTGGATGAATGTGGGAGAAAATGGAGACCAAGACGATCGTGTACGACTTGGACACGTCGGGGGGGCTGATGGAG
Seq A exon
GTAAGAGTGGCCCTCATCCTTTTCCCCCCAGTGCCAGGAGGGTACCTCCGCCCCACAAAGCCGGCCCTAAGCTCGAAGCGCCAGAGGGCCGGGAAAAGGGGGGGTTGTTCTTCCTCACCCAGTCTCTTCCTCCCCTCTTTGCAATTTGGGGGACTGAGCTTAGCTTCCGAGGACGTCTGCAGCAGTTTCACCTACCAGCCGCCCTCGATTCGCTCCCTGAGGCTTCAGCCCACTCCATTTCATTGCACCGGCAGGCCTCCCCACCCCCTTCTTGTCGGCCCCTTTGTGCTTCCCCCTGCACGTCCGGGTACCAAGCTTCGGGCCTCTCCCGAGCCGGGCTTTGGAGTCCCCCACTGTCCATACAAGGAAGTGGCAAGAAGAGAACCGCGCACCCTCTCCCCATCCCCCTACCCTGGTCCTCCCCATTTGGAAGGAGCTTTTCTTGTTGTGCTGCAGGAACGCAGTTAGGGTGGGCTCCCCTTGATTCCGGGGACCGAGAGGTTCTGGAAGCAGCCTGGATGGGAGGAAGAAGGACAAAAGGGGGAAGAGGGGTGGGTGACGGAGAAGCGGCGCCGGTGGGACTACGGGCTACCCGGGAGCTCCGAATGTGCACACATGCCGTCTGTATGTGTGTGCAG
Seq C2 exon
CAAATCCAAGCTCTGCTGGCTCCCCCCAAGACGGACGAGGCAGAAAAGCGGAGTCGGAAGCCCGAGAAGGAGTCCCGGAGAAGCGGCAGGGCCACCAACCACGACAGCTGCGATAGCTGCAAGGAAGGTGGGGATCTCTTGTGCTGCGATCACTGCCCTGCCGCCTTCCACCTCCAGTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037791-Phf12:NM_174852:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.073 A=NA C2=0.554
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0062824=PHD=PU(52.1=41.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCGGAACCTGTGTTGGGAAG
R:
GATCGCAGCACAAGAGATCCC
Band lengths:
342-980
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: