HsaINT0119369 @ hg19
Intron Retention
Gene
ENSG00000178467 | P4HTM
Description
prolyl 4-hydroxylase, transmembrane (endoplasmic reticulum) [Source:HGNC Symbol;Acc:28858]
Coordinates
chr3:49042294-49043300:+
Coord C1 exon
chr3:49042294-49042603
Coord A exon
chr3:49042604-49043150
Coord C2 exon
chr3:49043151-49043300
Length
547 bp
Sequences
Splice sites
5' ss Seq
CCGGTTAGT
5' ss Score
6.1
3' ss Seq
GCAGCTTATCCTGCCCACAGGTA
3' ss Score
8.89
Exon sequences
Seq C1 exon
GGTGCTGCGCCTCACTCGCCTGTCGCCTGAGATCGTGGAGCTCAGCGAGCCGCTGCAGGTTGTTCGATATGGTGAGGGGGGCCACTACCATGCCCACGTGGACAGTGGGCCTGTGTACCCAGAGACCATCTGCTCCCATACCAAGCTGGTAGCCAACGAGTCTGTACCCTTCGAGACCTCCTGCCGGCAAGTATCTCCCAACTGGGGGCTGCCTTCAATCCTCAGACCAGGAACACCCATGACACAGGCACAGCCCTGCACTGTGGGCGTGCCCCTTGGCATGGGGCCAGGAGATCACTGGGTTATCCCG
Seq A exon
GTTAGTGATGCCCTCACCTCTCCCCACAAGTTGTTTACCCAATGGCTGGAAAGGGGTGGCTACTGGTCATCGTGACCACTGGAGTCAACACAGACTGATGTACCCACAGACACCAAAACTTGCCCCCTGAGTTCTGAAGCAAGGGGCAAGGCTGGGCCCCTAGCTTGTCCTGCCCATTCCTCCAGGTGTTGATCTTGATTCCACTTAGAGAAGCTGAAGCTGTGCCTCCCTCCCCTGTCAAGCCAGTTCTTTCCTCTTCAGGTGGCTGTTCTGGCCCAGCCCCTTCCCATCCCCAAGGAGCCCTTCAGCGCGCCCTGTTGCTTCTGCTAGCCTACCTTTCCCTGCCAGGCCCTTGCTCAGGGCCATGGCATTTAACTAAGTGCACCTGTGATCTTGGCCAAAAAACCATTGCAACTCACAGTAAGAGACTGGGTTTCGGGGAAGGAGGGGCTAGGGACATTTTGGCACTGGCCTGCCCTATTGTCTCCCATCCTAGTCTGTCCTGGTCCCTGGCAACAGGAACCTGGGCAGCTTATCCTGCCCACAG
Seq C2 exon
GTAAGCCCCTGGGAGCATCCACAACTGGGGACCTGCTCAGTGCCCCCCCTGCCTTACAGCTACATGACAGTGCTGTTTTATTTGAACAACGTCACTGGTGGGGGCGAGACTGTTTTCCCTGTAGCAGATAACAGAACCTACGATGAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000178467-P4HTM:NM_177938:6
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.067 A=NA C2=0.018
Domain overlap (PFAM):
C1:
PF136401=2OG-FeII_Oxy_3=PU(30.1=69.8)
A:
NA
C2:
PF136401=2OG-FeII_Oxy_3=PU(32.1=68.0)
Main Inclusion Isoform:
NA
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:
GTTGTTCGATATGGTGAGGGGG
R:
CCCACCAGTGACGTTGTTCAA
Band lengths:
354-901
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)