MmuINT0118763 @ mm10
Intron Retention
Gene
ENSMUSG00000026873 | Phf19
Description
PHD finger protein 19 [Source:MGI Symbol;Acc:MGI:1921266]
Coordinates
chr2:34905450-34906558:-
Coord C1 exon
chr2:34906458-34906558
Coord A exon
chr2:34905599-34906457
Coord C2 exon
chr2:34905450-34905598
Length
859 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
TGGACTTTATCTCCCCCTAGAAA
3' ss Score
8.62
Exon sequences
Seq C1 exon
GTTACCACCAACAGTGCCACATCCCCATCGCAGTTGATGCCAACTGGCCCCTCCTCACTCATTGGTTCTGCCGACGCTGCATTTTCGCACTGGCTGTGAGG
Seq A exon
GTGAGCACCTCCCTACCCCCACCCCCAGTCCCACCCCCCACCCCCAGCCCTTGCCTTCCGACTGGCCAGACCAGAGCCCCAGAGACTCAGGCCTGAGACTTCATTGCTGATGCTGTACTCTAGGCAGAAGGGCTTCACTTGGTCCATGGAGACACAGGGTGCTCACTGTCTTAGACCAGATTTCAGAATCTCTCTAAACCTCAAGTTTCCCCAACCATAAAATGGACAGTTTTGTGTCAGTAGGAGGTCCCCAATAAAGGGCCATGTGCTATTAAAAGACAATGATATGTACCTGCCCCTAACACGTGGTATTATTTTTATTACTTCTTTTGTTTGGTTGGTTGGTTGGTTGGTTTTGTTTTTTGTTGTTGTTGTTTTGTTTTGTTTTGTTGTTTGTTTTTGGGTTTTTTGTTTGTTTGTTTGTTTTTTGGTTTTTCGAGACAGGGTTTCTCTGTATAGCCCTAGCTGTCCTGGAACTCATTTTGTAGACCAGGCTGGCCTCGAACTTAGAAATTCGCCTGCCTCTGCTTCCCGAGTGCTGGGATTAAAGGCATGTGCCACCACGCCCGGCTACTTCTTTTTTTTTTTTTTTAACTCTTGTTAAGATAAATATATTCTTTCACAGACTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTCCTTACTACAACTGATGCTATTAATGAATATCTCTAAGGGGAACAGGATGGGTTTAGGATTGGTAAGAAAAAGTTCCTCGTTTTTCTGATGCTCATAAAATGCCTGCGTCTCCCCAAACCCTGGCAGCATTTCTCCTGATAGCTATGTGCTGACAGGTGTGGTTGGTGACCTGGACTTTATCTCCCCCTAG
Seq C2 exon
AAAGGTGGCGCTTTGAAGAAAGGCGCCATCGCCAAGACGCTGCAGGCAGTGAAAATGGTGCTGTCCTACCAGCCGGAGGAACTCGATTGGGACTCGCCCCATCGCACTAACCAGCAGCAATGCTACTGCTACTGCGGCGGGCCTGGAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026873:ENSMUST00000028232:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF144461=Prok-RING_1=PD(25.6=29.4),PF0062824=PHD=PD(53.7=85.3)
A:
NA
C2:
PF0062824=PHD=PU(15.1=16.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTACCACCAACAGTGCCACA
R:
CCGCAGTAGCAGTAGCATTGC
Band lengths:
238-1097
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