HsaINT0044457 @ hg19
Intron Retention
Gene
ENSG00000239402 | CYP4F11
Description
cytochrome P450, family 4, subfamily F, polypeptide 43, pseudogene [Source:HGNC Symbol;Acc:39956]
Coordinates
chr19:16038240-16040411:-
Coord C1 exon
chr19:16040267-16040411
Coord A exon
chr19:16038294-16040266
Coord C2 exon
chr19:16038240-16038293
Length
1973 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCC
5' ss Score
8.63
3' ss Seq
ATGGTCCTCAATCATGTCAGCTG
3' ss Score
4.43
Exon sequences
Seq C1 exon
GTCACTCCCACGGAAGAGGGCATGAAGACATTGACCCAGCTGGTGACCACATATCCCCAGGGCTTTAAGTTGTGGCTGGGTCCTACCTTCCCCCTCCTCATTTTATGCCACCCTGACATTATCCGGCCTATCACCAGTGCCTCAG
Seq A exon
GTACCCGTGCAGAGCTTGTGGTAGTGGGGGCTGGGAAACATCAAAGGCCTTCTAGCCTCTCCCCTCCCCAAGCTTCTGTGTGGCCCCTGCAGGGCCCAGGCCCCTCTTCCTGCTTCTCTCTCAGCCATGTTCCTCTTTCCTTCATGTATTCACGAACCCCCCATGTCAGCGTCTCCTCCCTCCACTGCCATCTCTCTCTGCCTTTGTGTTCTGGGCACCACTGGGGCTCCAAAAAGCCTCAATTTAGGGCCCTGTCCTCGAGAAAGCCCCGTGCTTGAGGAAATGGATCTGGACAGAGACATCTCAAACTTCGTGGAGTCAGGAATTGGCAAGAAGGAGATGGGTGTGACAACTGGGAGAACAAGGTCTTTCCTGGGGGCAGATTGGAAGGCTTCCTGGAGGAGGAGTTGCTGGAAAAATGAGTAAAAAGATTTTAAAGCAAGGGGAAGGGTGATGCAGTGGACATCATTAGTATACAGGTACCGCTGCCAGGCCTGGCATCAGCCTTGTCTGTCCCTAAGCCTATGGTACTAGGGGGATTTGAGGCTGGTGGAGAATCTGGGCTGCTATTTATGTGATGTTCAAGTCTGGTGAGTTTATTCCTTTTACCTCATCCTGTCACTCATCCACCCTATTCATGGCTCTCCTGCTCCAGGCCCCAGCAATCTCCAGTAGGAGATCCCACCCCAGTCTGGGGCCCTTTCTTTACCTCTGCTCATCCTGTGCTTGAACAGGCCAGACTAAGCAGGGGCAGGGGAAGCATCCCACAGAAACTATGGCTATAACCTCAGGATGCTGAGTGACTCTGGGCAGGTCCTCAGCTCTCTCTGGCTGCTGAAGTCTCTTTCAGTTGCGAGTGATGGAAACTCAGACTCATGTGGTCTAAGCAAATAAAGAGAATCAATGTGCTGTAAGTCTGGGGAGAGTGGTCTTCAGGCATGGTTGGATCCAGGTGTCAATTAATCCACATCACTGGGAATCTGTCTCCTTCTCTCGATTTTACCATTCTCTGTGTCACTTTGCCTTTTCATATGGTGTCAACGATGAGTCTCAGAAGCCCAGTTCCAATCAGAAAGCCCACCTTTCTTCCAAGGGTCCCATATATAGCCTATGTTTTCTACATTATATTTGATTGTATCTGGTATATGCTTCCACCTGGGATCATATACAGAAGTCATCATGTGTGGGGCTCAGTTGTGGCTGAGGACATTTGGGGCATGTCAGAGTCTTTTTGGTTCTTGTCTGAGATGTAGTGTGAGATTGTCTTTTTATTCTACTTCAAATGTCTTGGCCATGTTTGGTGCTTGTCCAAGGTGTAGGACCCAGGGAATCTTTGAGAACTGTCTGAGATATTATTTGAGTCTTAGTATAGTTAGGTCTTAGGGTAGATTTGAATTATGCCGAAGAATAGGCTTGGTTATACCCGGGCCATGTTTAGGACATTAGTGACATCATATTTAAATGTTATCTAGGACCCTTCACTGGGATACACAGAAGTCATATCAGACCATCTCAGGTCCATGGCAGAGCATGTTGTGTCATTTAGGGTTTGTCATATGTGTTTTGGCCATGTCAGGGAATGTTAACAACTGTCGGGGCAATATTCCAGGTCCCAGATCCATGTCAGAAGATAGCAGAGAGTGCTGGGAGTAGACAGAGTGTCCTAGGTCCCTGTAAAGGCATTCTGTAGAGTGTTGAGCTATGCTCAGGTGTTGCAGAACATGTTGGACCTTGTAGGAGATATGTCATTGTGTGCTGGGGCATGCTGTGTTATTGCTCTACTCTGTCGCTGCAGCCTGGTCTGGTCTCTCCTTCCTCCACCATCCTCCCTTCTTCCTCTACCCTTGGCCTTCTTCCTGCTATGCTGGGTGGGATGCGTGGAAGTGCACACCCCTGGCTGGGAGCATTCCTCCATACCCAAAGTCCTTCTCTCACCCCTCTCCATGGCCACTGATGGTCCTCAATCATGTCAG
Seq C2 exon
CTGCTGTCGCACCCAAGGATATGATTTTCTATGGCTTCCTGAAGCCCTGGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000239402-CYP4F11:NM_001128932:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCACGGAAGAGGGCATGAAGA
R:
CTTCAGGAAGCCATAGAAAATCAT
Band lengths:
182-2155
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)