HsaINT0123950 @ hg19
Intron Retention
Gene
ENSG00000119403 | PHF19
Description
PHD finger protein 19 [Source:HGNC Symbol;Acc:24566]
Coordinates
chr9:123636257-123637034:-
Coord C1 exon
chr9:123636834-123637034
Coord A exon
chr9:123636339-123636833
Coord C2 exon
chr9:123636257-123636338
Length
495 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAAC
5' ss Score
4.45
3' ss Seq
CCTTCCTATCTGTACCCCAGGTC
3' ss Score
9.56
Exon sequences
Seq C1 exon
TGTCAGGGGAAGCTGATGGAGAATCGAGCTCTGGATCCAGGGACTCGGGACTCCTATGGTGCCACCAGCCACCTCCCCAACAAGGGGGCCCTGGCGAAGGTCAAGAACAACTTCAAAGACTTGATGTCCAAACTGACGGAGGGCCAGTATGTGCTGTGCCGGTGGACAGATGGCCTGTACTACCTCGGGAAGATCAAGAGG
Seq A exon
GTAAACCCATCCTCTCTGGCCCCTGTTCTCAGACTCAGAATCTCTCTGCTCATGTTCCAGCCTGGCTGTCAGACCAGGGGGCAGGGGGATTGCTGGAGAATTCCCTTCTTGTCCCTCATGCCCAAAGCTGGTGGTGGGAGGGGCCAGAGCCTGGTCTTGCAGGCACCATCCCTAGGGTCAACATCATCCAACTAGTTCTTTAGAAAAGTGCTCTGAGAGCCTACAAAACAAAAAAGTCAGGTTTGAGAGGATCACAGAGGAGCATCTGACTTGTGCTTCTGTCCTCAACATTCTGACCAAGTTGCCATCCATCGGTCCCTGGCTGTACGACTCCAGGTGACTAGGAGTACACCCTGTCCAGGAACTGCCATCCTTCTTCCCCTTCTAGCCCTGCTTTCTGGAACATACGGAGACAAAAATGGGGGAGGAAGACTATGTTCCAGGTTGGCTTTTCCCCAGCCCTTTCTCACTTGCTCCTTCCTATCTGTACCCCAG
Seq C2 exon
GTCAGCAGCTCTAAGCAAAGCTGCCTCGTGACTTTCGAAGATAATTCCAAATACTGGGTCCTATGGAAGGACATACAGCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000119403-PHF19:NM_015651:2
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=0.137 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF150571=DUF4537=PU(32.8=30.6)
A:
NA
C2:
PF150571=DUF4537=FE(46.6=100),PF0013017=C1_1=PU(6.5=10.7)
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:
GTCAGGGGAAGCTGATGGAGA
R:
CATGCTGTATGTCCTTCCATAGG
Band lengths:
282-777
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)