MmuINT0045353 @ mm9
Intron Retention
Gene
ENSMUSG00000028713 | Cyp4b1
Description
cytochrome P450, family 4, subfamily b, polypeptide 1 [Source:MGI Symbol;Acc:MGI:103225]
Coordinates
chr4:115308479-115308993:-
Coord C1 exon
chr4:115308869-115308993
Coord A exon
chr4:115308631-115308868
Coord C2 exon
chr4:115308479-115308630
Length
238 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGG
5' ss Score
7.2
3' ss Seq
CTCCACTCTCTTCTGTATAGTGA
3' ss Score
5.3
Exon sequences
Seq C1 exon
GACAAGTGGGAGAAAAAGGCTAGTGAGAATAAGAGCTTTGACATCTTCTGTGACGTGGGCCACATGGCACTGGACACCCTCATGAAGTGCACCTTTGGCAAAGGAGACAGCGGCCTAAGCCACAG
Seq A exon
GTCAGGAGCACCTCTACCTAAGGCTCACAGATAAGAAAGGTGGAAGGGCTCCTGGTCTCTGCTTGGAGAGGAGATGGGTCCTGCCTTGATATGTCCAGAGCCTACTCATGGTGGGAGACACTTTTGTTAGTGAGGAGGCTTAAGGAGGCAAGAAGAGGAACAGGAAGTACTGTTGATAGGGATTCCTAAAAGAAAGCTGCTCAGGCCTCTGCCCCTCCCTCCACTCTCTTCTGTATAG
Seq C2 exon
TGACAACAGCTACTACCTGGCAGTTAGTGACCTCACACTGCTGATGCAGCAGCGCATCGACTCCTTCCAGTACCATAATGACTTCATTTACTGGCTCACACCACATGGCCGCCGTTTCTTGCGGGCCTGCCAGATAGCCCATGACCATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028713-Cyp4b1:NM_007823:5
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(11.2=100)
A:
NA
C2:
PF0006717=p450=FE(11.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACAAGTGGGAGAAAAAGGCT
R:
TGTATGGTCATGGGCTATCTGG
Band lengths:
276-514
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: