HsaINT0044455 @ hg19
Intron Retention
Gene
ENSG00000239402 | CYP4F11
Description
cytochrome P450, family 4, subfamily F, polypeptide 43, pseudogene [Source:HGNC Symbol;Acc:39956]
Coordinates
chr19:16023180-16025197:-
Coord C1 exon
chr19:16025115-16025197
Coord A exon
chr19:16024720-16025114
Coord C2 exon
chr19:16023180-16024719
Length
395 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
TCCCTCACTTTTGCCCCCAGAAA
3' ss Score
9.96
Exon sequences
Seq C1 exon
GTCTACGACCCCTTCCGTTTCGACCAAGAGAACATCAAGGAGAGGTCACCTCTGGCTTTTATTCCCTTCTCGGCAGGGCCCAG
Seq A exon
GTAAGGATGGCCTGTGTCTGAGGCAGAGATGGCATGATGGGTGCAGGGGTCCAAAAAGGGGGAAGTTACAGATGGTCCCAGTTCCAGCTCTCCTTCCCTCCCTTCCTCAGGAGTTCATGGGCAACTGTTCACAGAATGGGTTTGGGAAGGTCCTAGAGGGGTCTGCGGTGTGCTCAGAGTCCCCTCCTTCATCTGTTTATCTGAACTGGGGGTAGGAGCCTGGGCCAGGTTTGGGGGATATGCAAGCACACATGGGAGTCCTGTGGACACTTATCCCCTCTTTCTGCCCCTCAAGCCTATGTGGGTGCGTTTGGGGTCCCAGGCCAGGTTCTAAGCATGATGGGGCCGGGATGGGGGTCATGGGCACAGTCAGATTCCCTCACTTTTGCCCCCAG
Seq C2 exon
AAACTGCATCGGGCAGGCGTTCGCCATGGCTGAGATGAAGGTGGTCCTGGCGCTCACCCTGCTGCACTTCCGCATCCTGCCGACCCACACTGAACCCCGCAGGAAACCCGAGCTGATATTGCGCGCAGAGGGTGGACTTTGGCTGCGGGTGGAGCCCCTGGGTGCGAACTCACAGTGACTGTCCTACCCACCCACCCACCTCTGTAGAGTCCCAGAAACAAAACTATGCTGACACCTCTGCTTGAGCCTCGTTGACAGCCAGCATGGGGCTCCTGGGGACTGGTGGGATCTAAGAAAGGGAGGTGAGTGGGTGGAGGCAGGGTGACGTCTCTGAACCCAAAACCCTGACGGCCTCTCTGGCTGAGCACAGGGCATCTAGGCCCTTAGTGGGTTCTCCCAGAGCCCAAGTAAAAACTTTATCCTGTGGGCAGTAGGGAGCCCTGGGAGGTGTTTGAGCAGGAGAGGGAACAGGATTAAGAATGGGTTTAAGGAGCAAGACTGAGACTCTGATTCAGCGAGAAACAACCATAGGGGCAGATCCCTTCATCTGTCCTGGGAATGTCCTCCCAAGACTGGAGTCCTCAGCTCAGAACAAAGGGAAAGGGGTGCAGCTTCCACCCTGGCAGGCTCTCAGAAATTTTTAGTTCCTTTTTCCACCAACTTCCCACCCCTGTTTCTCCCCCTCCCAGTGCGTTCTCTCTGTGACTCTCTTCCCTTACTTTCAGAGGCATAGGATCTGGAGCCAGACTGCTTGGGCTCAAGTCCTGGCTCTGCTGCGTGACTTGAGCAAGTTAATTCCTCTCTCTGTGCCTCGGTTCCCTCAACCATATAATGGAGACAACAGCATTACCTATATCAGGGTTTTCCTGAGGTCTCAATATAAGGGACTCAGAGCTGTGCCTGGCACACAATGAATGCTAAATATATGGAGCCATTATTATTTCCTGTCTCAGAAAGTCTGGCTGTTAAAGAATGTTGTCTTTCAAGATCGTTATTTCTACCACGACTTTAAAGGCTGTGTTTTGGAACTCAAAGGCAAAAATTCTAATATCTGTGCTCCTTGAACAACCTCTTCTCCTAGAGGGCTGTGCATATAAGATATGTATATATATATATATATTATATATATATATATATACACACACACACACACACACACACACATATATACATATACACACACACACACACACACACACACACACACACACATATATATATATATATATTTTTTTTTTTTTCCTGAGGATGGTGAAGGTACCTGACTGTGTGAGGTGGTAGGAGAATGAGAGAAACCTCAGTCAGTGTCTCAAAATAAAATCCTGCTACAAACATTGATCTCTTTTCATAGCCTAAGGGATGTTGCATCGCTAAACCCTGTTGACTTCTCTAATCTCTTCTGTAGCTGATCTCCTTCCCTTGCTACACTCGGTTACTCTGGCCTTGATTCTGATCTCCAAATACATTATATTTTTTATTTGGGACCATCGTATTGCCTTTGCACCTTTATCAAATATAAGTTGCCTATATTTATTTGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000239402-CYP4F11:NM_001128932:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
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
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTTTTATTCCCTTCTCGGCA
R:
ACCCACTCACCTCCCTTTCTT
Band lengths:
342-737
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)