MmuINT0118755 @ mm10
Intron Retention
Gene
ENSMUSG00000026873 | Phf19
Description
PHD finger protein 19 [Source:MGI Symbol;Acc:MGI:1921266]
Coordinates
chr2:34899583-34901127:-
Coord C1 exon
chr2:34901060-34901127
Coord A exon
chr2:34899745-34901059
Coord C2 exon
chr2:34899583-34899744
Length
1315 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
CCTCTCTCCTGCCACCCCAGGTT
3' ss Score
7.68
Exon sequences
Seq C1 exon
CTCACCAGCACCCCCATGACAGAACGAGGGCCACATCTCCTCAACGCTCTCAACAGTTACAAGAGCCG
Seq A exon
GTGAGTGCAGGGAGGGAGGGAGGGAGGGCTGTGGATCCTGACTGGGATTTCAGTCTAAAGACTCTTCGTCTGCTCCAGCTGGGCTCCCTGCCTGGCTCTCCTTCCTCCTCCTCCTCCTCCCCCCTCCTCCTCCTCCTCCACCACCACCACCACCATCCAGGGAATAAAGACATCTAGAGGCCTTCCTTTGCAAAGTCTTCCCAAGTGTCCAGAGCCTTGACTCAGTTGTATGCTAGGCTCCATTCTATGCCTGGGTCAGCTAGAGGGCTTCAGCCTCTGGGCTACTTCATAGCCTTTGCCTTCCCATCCCAAGTTCTAGCACTCACTCGCCCTTCAGCCATGTTCAAGGTCTTTTATGACACCACCCTCCCTGTCTGCATATTACATTGTTATCCTTTTGCTTTATGGTCTCTGGGTGTCAGCCAGCCCTGCTCAGCCCTTGGCTTCCTTTCCATTTGTTGGTTGGTTGGCTGGTTGGCTGGCTGGTTGGTTGGCTGGCAGGCTGGCAGGCTGGCTGGCTGCTTGCTTGCTTGCTTGCTTGCTTGCTTGCTTGCTTGCTTGCTTTTTGAGATAGGGTCTCACTCTGGCCCAGGCTCAAACTCTTGATTCCCCTGCCTCCACCTCCTCCATGCTGAGTTTACAAGTGTGCACCACCACGTCCCGTGTATTGAGCACTTTGTTCCTGTCCTTGCCTCGGCATCTTGTTCCCAACCTTCATTCCGTTTTTTGGCAGCAAGTAGTTTCTACAGAAGTGTAGAAACTTAGTTATGGACTATTTAACGGGCCTATCTAGGTGGATTCTGAGCTTCAGGGAGAGTCTGGGCTACGAGATACAGCCCCTGCTTCTGTGAAAGCTTGCCTGAAGCCTCTTGCAGGGAGGGTGACCTGCTTACACCTTCCTGCAGTTTGAGGTTCGATAAGACCTCCCCATTGAGGATGGGACCCCTTGGCCTCCCAGTGCTCAGCTTCCTGAGAACAGGCCTAGGTTTGAACACAGCCTCAGGGCCTCACTCAGCCAGTGTTGAAATAAGAGATATGCCCGGAGGTGCTTCCTGGCCACAGAACATTAAGCCCTGGCACCCGTACCTGGGTCCCGCTGTACCCGGTGGCCTTGCAGCTGCCAAGGCTAAGAAGCCTCAAGGAAGAGCAAGAATAGAATACGTTCAGGTGGCAGGGACAGGGAGGCACTTGGCCACATTCTCCAGCTGGGGACTGTGAATTCTCTCGGGGCGGGGAGGCCCCTGGCCTTGGTGGCAATCTGCTTCAGTCTCCGGAGGATCAGCTGACAGCCCAAGCCTCTCTCCTGCCACCCCAG
Seq C2 exon
GTTCCTGTGTGGCAAGGAAATTAAGAAGAAGAAATGCATCTTCCGACTGCGCATCCGAGTCCCGCCTGCCCCTCCAGGAAAACTGCTTCCCGACAGGGCGTTGATGCCAAGTGACAAAGGGACCTCCGAGCTGCTTCGTAAGAAAGGAAAGAGCAAGCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026873:ENSMUST00000028232:10
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=0.382
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CTCACCAGCACCCCCATGA
R:
CCAGGCTTGCTCTTTCCTTTCT
Band lengths:
230-1545
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