MmuINT0119251 @ mm9
Intron Retention
Gene
ENSMUSG00000079484 | Phyhd1
Description
phytanoyl-CoA dioxygenase domain containing 1 [Source:MGI Symbol;Acc:MGI:3612860]
Coordinates
chr2:30136530-30137668:+
Coord C1 exon
chr2:30136530-30136656
Coord A exon
chr2:30136657-30137289
Coord C2 exon
chr2:30137290-30137668
Length
633 bp
Sequences
Splice sites
5' ss Seq
TTGGTAGGT
5' ss Score
7.03
3' ss Seq
ACCTTTTGCACTCTCTCCAGGCT
3' ss Score
9.54
Exon sequences
Seq C1 exon
GGGGTCTGGTTCTGATCCATGGAGAAGTGGTGCATAAGAGTGAGCAGAACCATTCCGACCACTCCCGCCAGGCCTACACTGTCCACCTCATGGAGGCTGCCGGCACTGTCTGGAGCCCAGGGAATTG
Seq A exon
GTAGGTACCAAGGTTGGTATGTGCCCCAGAGAGCCTCCCAAGAAGACCCTTTAGGCTAGGCACAGTGAGGCAGAGGCAGGCAGATTTCTGAGTTCGAGGCCAGCCTGGTCTACAGAGTGAGTTTCAGAACTGCCAGGGATACACAGAGAAGCCCTGTCTCTAACAAACAAACAAACAAACAAACACACACACAAAGAAGAAGAAAATCACAAATTAGATATCTTTTTTTTTTCTTTTTTTTTTTTCAAAGATTTATTTATTATTATATGTAAGTACACTGTAGCTGTCTTCAGACACACCAGAAGAGGGAGTCAGTTCTTGTTACGGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCTGGACCTTTGGAAGAGCAGTCGGGTGCTCTTACCCACTGAGCCATCTCGCCATCCCCCAAATTAGATATCTTGATGGTGAAGATCAAACTTGCTCCAAGGAACTTGATTAGCTAATCAGCAGGAAGTAATTTAATGATAAGGTCACCCATTTTCCCCTATTTTTTTCCTCCTATGTAGTGTTAGGGGGTTAGGGTGGACATGGGTGGAAGAAAGAACTCACAAAGTAGCCAAAGTCCAGCTGCAGCACCTTTTGCACTCTCTCCAG
Seq C2 exon
GCTCCAGCCCACGCCCGAGCTGCCCTTCCCACCACTCTACAGCTAAAGGCCCTGGCAGGACAGGGCAGGTCCCCAAGGGATGCTGACAACACCAGGCTATCTGGCTGCAACTCAAGGGCACGTCTTCCTCTATGGGCTTTCTTTCTGATGGTGTCTGTGACCTTGGTCCAGCAGACAGGGAGCCAAGAAGTAAAAATGAGGGCAGGAGCCCAGGCTGCACAAGGGTCTTCTTCCAAAATTTTCTCTCTATATACCTTTCTGTCCCAACCCAGCTTTCTGAAGTGGCTGCTTAACCATGCAAGGATTGTGTTTGAGTCTCACTTTTCTCTTGGATGGATGTTACTGTGTAAGGCACTGAATAAAAACGACTTAAAATATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079484-Phyhd1:NM_172267:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.223 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF057218=PhyH=PD(10.7=55.8)
A:
NA
C2:
NO
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:
GGCCTACACTGTCCACCTCAT
R:
GCCACTTCAGAAAGCTGGGTT
Band lengths:
343-976
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: