MmuINT0119257 @ mm9
Intron Retention
Gene
ENSMUSG00000079484 | Phyhd1
Description
phytanoyl-CoA dioxygenase domain containing 1 [Source:MGI Symbol;Acc:MGI:3612860]
Coordinates
chr2:30132668-30133164:+
Coord C1 exon
chr2:30132668-30132730
Coord A exon
chr2:30132731-30133142
Coord C2 exon
chr2:30133143-30133164
Length
412 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
ATCCTTGCCCTCTCTTGCAGCAA
3' ss Score
10.56
Exon sequences
Seq C1 exon
GCTTTGGTTAGAAGTCTGGGCCTCCAGATGCCAGTGGTGGTGCAGAGCATGTATATCTTTAAG
Seq A exon
GTGAGCTCCGCAGCCTTCTCTAACTCAGTTTCCCCCTGTAAGATGGAAGACTGTTCATACACAGCTTTATCTTACAATAGACCAGGAACTGCTGGAGTTGACTAGGTTGTGGGGAGGGCACGTAGGCTGGCCTCTGGCTAAGGTGCTGAGTGCTGCACAGATGCTCAGGAAAACCTGTTTAAAAGAAGCCAAGGGAACCCTGCGCTCCCTGTTCTGCTCTCAGCTCTCAAGGGCCACCTCAGTGCTACCTTGTCAAAGAAACTACCTAAATCTCTATGCTGCCCTCCTAGACTGAGCGCACAGTAGGTACTCAGTCGATGGGTGCTCGTGCAGTGTTGGAGGACCTACAAGACTCAGATCCAGCCCTGTCTGCTCTCCTCTCCTCTCACCACATCCTTGCCCTCTCTTGCAG
Seq C2 exon
CAACCTCACTTTGGCGGCGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079484-Phyhd1:NM_172267:7
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=0.192
Domain overlap (PFAM):
C1:
PF057218=PhyH=FE(14.4=100)
A:
NA
C2:
PF057218=PhyH=PD(7.5=30.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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: