HsaINT0123945 @ hg19
Intron Retention
Gene
ENSG00000119403 | PHF19
Description
PHD finger protein 19 [Source:HGNC Symbol;Acc:24566]
Coordinates
chr9:123624866-123626394:-
Coord C1 exon
chr9:123626327-123626394
Coord A exon
chr9:123625028-123626326
Coord C2 exon
chr9:123624866-123625027
Length
1299 bp
Sequences
Splice sites
5' ss Seq
CCGGTGCGT
5' ss Score
9.74
3' ss Seq
CTCCCACTGCCCACCCCCAGGTT
3' ss Score
9.12
Exon sequences
Seq C1 exon
CTCACCAGCACCCCAGTGACAGATCGAGGACCACATCTCCTCAACGCTCTGAACAGTTATAAAAGCCG
Seq A exon
GTGCGTGCAGGGAGGGGAGGGAGTGTGGTGGGGCCCTCTACAGGTGAGATTCCTTCCTACCTCATAGCCTTTGCTCAGGCTATGCTCCCTGCCTCTCTGATACTCCCCTTCTCTCTGAATCATTTCCATTCTCCGAGATCCAGGGGGTACCCCACCTCCTTTGCACAGCCACTCCAACCACCCCAGCAGCCTGCCGTATTTTGGTACTGGGCTCAGCTCTGTAGGGGGGCTGCACCCCTGCTCTCTGAGGGCCCCTCCGGCTCTAGACATCTAGGCCTTGGGGGCCAGGCACTGAGGGATGGGTGCATCATCTCGGGTGGGCTACATCCTCGGGTGGAAGACATCCCTCAGCCCCTGTCTTCCCATCCAGGGTTCTCAGCACACACAGCTGGCCATGTCCCTCACTACACCACAGAGGCATGCCCAGCCTCCTGAACCTGGCACTCAAGGCCTTTTAAGACCAGGCTGTGCCCGCGTCCTCTGCCGCTGTCCCTTTGCTTTCTGTATTCTGGGTGCCAGCCATCCTGAGTCCTTGGTTTCCTACCTGGCACTTTTACTCATGCTCTGCCCTTTGTCTAGGATGTGCCTCAGTCTTTTTTACTCATTCGTTCCATCAACAAGTATTCATTGAGTTGCTGTTCTATGTCGGGCCTGTCTGGGTGCTGAGGTCATGGTGGGGAATAAAATAAGGTCCTCATCGCTGAAACTCTTCCAGACACCTCTGGGTAGAATTATCCACTCTCTCTTCCACATTCTCATGGTTTAGGGCCCAGACAAAGCTCTGCTCTTCAGTACAAGAGGCCACCTGCCCTCCCAATGGACAGTCCTCTATTGGGAGGGCAGGTGGCCTCTTGTACTAAAGAGGGTAGGGCTGTGTCTAAGTCACTTCTGCAGCCTCAGAGGAGCCCAGCCGGTGTTGCTTTCAGTCTCCTGGGGAAACCAGAGAACAGAATGAAGTAGATTCCAGTATCTTGACCATAGGAGTTCCACTGTAAGCTGGAGGAGGGCTTCCTGCAGGAGGTGGCCTTGGGGCTGGTTGAGGCAAACAAAAGGGAGAAGAGCAGCAAGAACCACACTCATGCAGGAGGAAGCACAGGGAGGAGGCACCAGCCGTGTTCTCAGCTGCTACCTGGAACCCCGCATCCCATGGGCTTTGAGGAAGTCAGCATCTGCAGAGACCATCCGGATTTTAGCTCTGGGTCCAAGGAGGCAGAGAGGCTTGTGTCATGCTTGACCCCACTCCCCAGGAGGATGGACTGACAGACTCCAGAGCTTCTTCCTCCCACTGCCCACCCCCAG
Seq C2 exon
GTTCCTCTGCGGCAAGGAGATCAAGAAGAAGAAGTGCATCTTCCGCCTGCGCATCCGCGTCCCACCCAACCCGCCAGGGAAGCTGCTGCCTGACAAAGGACTGCTGCCAAATGAGAACAGCGCCTCCTCTGAGCTGCGTAAGAGAGGAAAGAGCAAGCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000119403-PHF19:NM_015651:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.418
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion 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:
CCAGTGACAGATCGAGGACCA
R:
CCAGGCTTGCTCTTTCCTCTC
Band lengths:
218-1517
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)