HsaINT0044245 @ hg19
Intron Retention
Gene
ENSG00000108242 | CYP2C18
Description
cytochrome P450, family 2, subfamily C, polypeptide 18 [Source:HGNC Symbol;Acc:2620]
Coordinates
chr10:96447527-96448031:+
Coord C1 exon
chr10:96447527-96447689
Coord A exon
chr10:96447690-96447881
Coord C2 exon
chr10:96447882-96448031
Length
192 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAAT
5' ss Score
4.94
3' ss Seq
TCTGTTTTCTGTTCTGCTAGGAA
3' ss Score
9.14
Exon sequences
Seq C1 exon
TTCTCAAAAGTCTATGGCCCTGTGTTCACTGTGTATTTTGGCCTGAAGCCCATTGTGGTGTTGCATGGATATGAAGCAGTGAAGGAGGCCCTGATTGATCATGGAGAGGAGTTTTCTGGAAGAGGAAGTTTTCCAGTGGCTGAAAAAGTTAACAAAGGACTTG
Seq A exon
GTAAATGTGCATGTATCGTGTGTATGTGTACATGTGTATGTACTGGGCAGTGGCTATAGGGATGGGGAGGATGGAAAACAGGCTTGAAGAGCTCCTGGGACAGAACTTGACCTGTCCACGTGGCTGCCGAGTGTCAGCTCTCTTGTCCTTGTTTGGATTCTCCCTCGTAGCTTCTGTTTTCTGTTCTGCTAG
Seq C2 exon
GAATCCTTTTCAGCAATGGAAAGAGATGGAAGGAGATCCGGCGTTTCTGCCTCATGACTCTGCGGAATTTTGGGATGGGGAAGAGGAGCATCGAGGACCGTGTTCAAGAGGAAGCCCGCTGCCTTGTGGAGGAGTTGAGAAAAACCAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000108242-CYP2C18:NM_000772:2
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=0.000
Domain overlap (PFAM):
C1:
PF0006717=p450=FE(11.8=100)
A:
NA
C2:
PF0006717=p450=FE(10.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGCCCATTGTGGTGTTGCAT
R:
TCTCAACTCCTCCACAAGGCA
Band lengths:
258-450
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)