HsaINT0124452 @ hg19
Intron Retention
Gene
ENSG00000175287 | PHYHD1
Description
phytanoyl-CoA dioxygenase domain containing 1 [Source:HGNC Symbol;Acc:23396]
Coordinates
chr9:131698862-131700057:+
Coord C1 exon
chr9:131698862-131698924
Coord A exon
chr9:131698925-131700035
Coord C2 exon
chr9:131700036-131700057
Length
1111 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
GCTTTTCCTCTCTCTTGCAGCAA
3' ss Score
11.95
Exon sequences
Seq C1 exon
ACCTTGGCCAGAAGTCTGGGCCTCCAGATGCCCGTGGTGGTGCAGAGCATGTACATCTTTAAG
Seq A exon
GTGAGCTCCTTGTCCTTGCCTCAGTTTACCATCTGTAAAATGGGCAGACTGCTCATACCAAGCCCTTCCTTACAATGGGCCAAAAGTTGCTGGAATTATTATGTTGGTGGGAGAACATGGAAAATCGGTCTCCTCTGGCTAAAGCACCTGGAACTTAGTTGATCCTCAGTTAAAATTTGGTGGTAGGGGCCGGGCGTGGTGGCTCATGCCTGTAATCCCAGCACTTTGGGAGGCTGAAGCGGGCAGATCACCTGAAGTCAGGAGTTCGAGATCAGCCTGGCCAACATGGAGAAACCCCATCTCTACTAAAAATACAAAAATTAGCCGGGCGTGATGGCACACACCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCAGGATAATTGCTTGAACCCAGGAGGTGGAGGTTACAGTGAGTGGAGATCACGCCAATGTACTCTAGCCTGGGGGATAGAGCAAGGCTCCGTCTCAAAAAAAAGAAAAATTTGGCCAGGCGCAGTGGCTCACGCTTGTAATCCCAGCTCTCAGGGAGGCAGAGGTGGGAGGGTAGCTTGAACCCAGGAGTTTGAGACCTGCCTGGGCAATATAGCGAGACCCCATTCTCCACAAAAAGGAAGAAAAAAAAAAAGAAAAAAAAATTTGGTGGTAGGAGGGAGGGTCATCCCCAGGCCTCCCTCGGCCTTCCTCCTCCCTTCTTTGGCAATTGAAATGCTGTGCTCCCAGCTTTCAAGGGCCAGCTCAGTGCCACCTCTTCTAAGAAGCCTTCCAGAACCCCTGAGGAAAGAAGGACCCATCTGACTCTGGGGCTGGAAGGCTCAACTGCTGGCCTGTGTCCTAGCCTCTCCCTCCAGTCCTTGCCCTGCTCTGCTCTGTGATCTTGTTAGGCATGTGTGTGCTTGCACATGCTAGGAGCTTGTTGGGCAGGGGTGGGGGTTTTCTCTTTGCATCCCTCCTGGGGCTGGCATATGGTAGGTGCTCAGTAGCTGGGTGTTGATGTGGAATCCTGAGAGGAAAATGCCTGTGGCCAGAGCAATAGCATCCTGGGAGTCTCAGCAAGCCCAGCTCCTCTCTGCTCTCTTCTGTCCTCACCAGGCTTTTCCTCTCTCTTGCAG
Seq C2 exon
CAACCTCACTTTGGCGGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000175287-PHYHD1:NM_001100876:8
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.125
Domain overlap (PFAM):
C1:
PF057218=PhyH=FE(14.1=100)
A:
NA
C2:
PF057218=PhyH=PD(7.5=68.8)
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)