MmuINT0118686 @ mm10
Intron Retention
Gene
ENSMUSG00000037791 | Phf12
Description
PHD finger protein 12 [Source:MGI Symbol;Acc:MGI:1924057]
Coordinates
chr11:77982802-77984197:+
Coord C1 exon
chr11:77982802-77983377
Coord A exon
chr11:77983378-77984015
Coord C2 exon
chr11:77984016-77984197
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
GGTAAGTTTGCGCCAAGTGCGCGGCAGCCGGGACGCAGACGGCAGCGGCGGCGAGAGGCGGAGCCCGGGGACCACCCCCCATCATCCTCCCCAGAGTCACCTCACGAACCACAACCTCACCTAACCTCTCACCCCCCCCTCCGGTCCCCCAAGCCCGGGATGGCAGCGCCCGCTAGCCTTCCCGGCCGGACCAGCGGTCGCCAGCGCCAGCTTTAGCCTGTGGGCCTAGGCCCCCGCCGAGGCCTGACCCCCGGAGCCGGGATCCACTGTGCAGCCAGCCGCTGGGCCGGGGCTGAGGGGTTGCTCCCCTCTCGCGGCCCGTGGGGAGGACGCTGCCGTCCCAGGGACTGGGGGCCGGGGGGTGGGGGGGAGCCAGGGCGAGGAAGTCGGAACCTGTGTTGGGAAGAGAGAAGGGGACCGGGGGTCAGAGGTGCCCCCTTCCCCTCCTCCCCCCTCCCCCCGGGGCTGGGGGGGCCGGAGCAGAGAGCGCCCAGCCCGAGAGGTGGATGAATGTGGGAGAAAATGGAGACCAAGACGATCGTGTACGACTTGGACACGTCGGGGGGGCTGATGGAG
Seq A exon
GTAAGAGTGGCCCTCATCCTTTTCCCCCCAGTGCCAGGAGGGTACCTCCGCCCCACAAAGCCGGCCCTAAGCTCGAAGCGCCAGAGGGCCGGGAAAAGGGGGGGTTGTTCTTCCTCACCCAGTCTCTTCCTCCCCTCTTTGCAATTTGGGGGACTGAGCTTAGCTTCCGAGGACGTCTGCAGCAGTTTCACCTACCAGCCGCCCTCGATTCGCTCCCTGAGGCTTCAGCCCACTCCATTTCATTGCACCGGCAGGCCTCCCCACCCCCTTCTTGTCGGCCCCTTTGTGCTTCCCCCTGCACGTCCGGGTACCAAGCTTCGGGCCTCTCCCGAGCCGGGCTTTGGAGTCCCCCACTGTCCATACAAGGAAGTGGCAAGAAGAGAACCGCGCACCCTCTCCCCATCCCCCTACCCTGGTCCTCCCCATTTGGAAGGAGCTTTTCTTGTTGTGCTGCAGGAACGCAGTTAGGGTGGGCTCCCCTTGATTCCGGGGACCGAGAGGTTCTGGAAGCAGCCTGGATGGGAGGAAGAAGGACAAAAGGGGGAAGAGGGGTGGGTGACGGAGAAGCGGCGCCGGTGGGACTACGGGCTACCCGGGAGCTCCGAATGTGCACACATGCCGTCTGTATGTGTGTGCAG
Seq C2 exon
CAAATCCAAGCTCTGCTGGCTCCCCCCAAGACGGACGAGGCAGAAAAGCGGAGTCGGAAGCCCGAGAAGGAGTCCCGGAGAAGCGGCAGGGCCACCAACCACGACAGCTGCGATAGCTGCAAGGAAGGTGGGGATCTCTTGTGCTGCGATCACTGCCCTGCCGCCTTCCACCTCCAGTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037791:ENSMUST00000049167:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.064 A=NA C2=0.541
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF137711=zf-HC5HC2H=PU(96.7=96.7),PF144461=Prok-RING_1=PU(93.9=50.8)
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
- 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