MmuINT0119253 @ mm9
Intron Retention
Gene
ENSMUSG00000079484 | Phyhd1
Description
phytanoyl-CoA dioxygenase domain containing 1 [Source:MGI Symbol;Acc:MGI:3612860]
Coordinates
chr2:30125209-30130065:+
Coord C1 exon
chr2:30125209-30125367
Coord A exon
chr2:30125368-30129989
Coord C2 exon
chr2:30129990-30130065
Length
4622 bp
Sequences
Splice sites
5' ss Seq
CAGGCAGGT
5' ss Score
2.53
3' ss Seq
CTCCTATGCCCCCTCCATAGGGC
3' ss Score
9.54
Exon sequences
Seq C1 exon
TTCCAGGAGGACGGGTTTCTGCTGTTGGAAGGATTCTTCACAGCGGATGAGTGTGTGGCCATGCAGCAGAGGATCGGTGAGATTGTAGCTGAGATGGATGTCCCTCTGCACTGCCGGACAGAATTTTCCACCCAGGAAGATGAGCAACTTCAAACCCAG
Seq A exon
GCAGGTACCTGGGGCGCTGAGGGTGGGCGTCTGGTTTTGGTGGGTGCTCAGTCTTAGGCAGCAGTCTGGACTGGACGGGAGGACCCTAAGGCCACACACAGACTTCTGACAAGGGATCAGACCTCAGCCATCTGTATGCCGGGTACCAGGCTAAAGAGCTGTGCTGTATTCCTCCACACTATGAATTTATAAGGTGGCTATTATTATTCTCGCTTGGCAATGGGAAAAGCGGGGCTTTTCTCTGGGTAATATTGTGCTGCTCCAACCACACAGTTTGTAACTGATAGAGACTTGAATCCACCTCTCTGATATCAAATGATGCTGGTCGTTGACCTGCTGCAGTTTCTCAAATTCTCTGGTCACAAAGAACTCTCTGTGACCAGAGTGAGCCCTGTGATAGGCCACTCTTGGGTGAGTCATCTCCCAACCAGACTAGGAAGGCCTCTTGCTTCCTCAGACTCAACACAGTTTGGCAGGATAGGTGGTTCTTCCAACCAGTTCCCTTAACCCTTCTTAGTCTGAATTTTTTAGTGGTTCAGGCAACAGGGCTCACCTTATACTGATGCCAAGGGGCTTCTGCCATCTGGTGGACATAAATAGAATTACAGCAGCCAGAAACTGCTTTCTCCCAGAGAGGGGAGGAGGAAGGATGGAGGCTTCAGAAGAAGACACATAACAGACTGAGAATTTTTCCAACTAGCAGGACAGACACACTCTAAGGAATGAGGGGGCCGAACCCTGTCCCTCTCCCTAGTTACTTACCGAGAAGACTCTAACAGTCCGGTGGTTGCAGAGGTAGGAATGTTGAAAGAAGAAAGGGTGATGTTAGAGATATGGCTCATTGGTTGAGCATACTGGCTGCACTTCCAGAGGACCAAGGTTCAATTCCCAGCTCCCAGTTCCCACATGGTAGCTCATGTACTTCCAGTTCCAGGGGCCCAATACTCATACAGATATACACGTGGGCAAAACACCAATGCACACAACACAGGACACAGAGGCAGGTGAATCTCAGTGAGTTCTAGGCTGGTCACTCTACAAGGTGAGTTCTAGGATAGCCAGATACAGAGGAATTGTGTTGAAAAAAAAAATCAAAAACAAATGAAGAAGAGGAGGAGGAAGAAGAAGAAGTGGAGATGGTGGTGTGGTTTGGGGTGCTGGAATTGAACCTGGGTTCTTTTTTTTTTTTTTTTTCTTTCCTTTTTTTTTTTTTTTTGGTTTTTCTTTTTTTTTTTTTTTTAAAGACTTATTTATTTATTATATGTAAGTACACTGTAGCTGTCTTCAGACACTCCAGAAGAGGGCGTCAGATCTTGTTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCCTGACCTTCGGAAGAGCAGTCGGGTGCTCTTACCCACTGAGCCATCTCACCAGCCCTTTTTTGGTTGTTTCGAGACAGGGTTTCTCTGTAGAGCCCTGGCTATCCTGGAACTCACTCTGTAGACCAGGCTGGCCTCGAACCAGAAATCTGCCTGCCTCTGCCTCCCGAGTGCTGGGATTAAAGGCATGTGCCACCATGCCCGGCTTGAACCTGGGTTCTTAAAAGAGCTCACTGAGCCATCTTCCCAGCCCTAAGAAGCAATGACCTTGCACTTAAACTTTGCTCTTTTCCCCGGCAATACAGCTGCAGTGCTGGGCGGAGACAGGGAGAGGCACCTTCTGTAGGAGACACAGCAAGGTTTTGTAATGTATGTATTGCTAGCACTGTTCAGATAGAATATTTGCTTGTTTGTTTTGAGACAGGGTCTTATTTTATAGCCTTGTTTGTCCTGGAACTTGCTGTGTAGCCCAGGCTGGCCTCAATCACACAGAGATCTGTCGGCCACAATTGTGTCATTTTTAGCTCAGGACTCCACACACCACCTAAGATACTGAATATAAAATAGGCACAACCGCCAGGCGTGGTGGCACATGCCTTTAATCCCAGCACTTGTGAGGCAGAGGCAGGTGGATTTCTGAGTTCTAGGCCAGCCTGGTCTACAGAGTGAGTTCCAGGACAGCCAGGGCTACACAGAGAAACCCTGTCTTGAGAAAAAAAAAAATAGGCACAACCACCTGCTAATGTAAGTTGGTTTTTTTTTAAGATTTATTTTATTTATTATATGTAAGTACACTGTAGCTGTCTTCAGACACCAGAGGAGGGAATCAGGTCTTGTTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGGACCTCTGGAAGAGCAGTCAGTGCTCTTTACCACTGAGCCATGTCTCCAGCCCCGTAAGTTTTCTTCATATGTTTAAGGCTAGGTAAAGCTGTTCAACCAGCAGGTGTAACAGTGACTTCTTGCTGTGACAAAACTTGGCCATCAGAAGGAGGATTGGTTTATTGGGCTCCCTGTTTCAGATGGTTCAGTCCATGGTCACTTGGCTTTGCCGCAGAATATTTAATCACAGTGTAAACCCGGAGATTGTGTTGTTTACTGGGGAAAAAACCTATTTCTAGTTGTGATGTCGCTCAGCCCTTAGCACACAGCTTTAATCCCTCTGACTAGAATATAGACACGCCCTTAATACACACCTTTAATCCCCCAAGATGAAGGTATAGTTAGTTTGTAGAAGGAAGTACCCATATTTGAAAGTGATGTCTAATTGAGTAGCAGACAAAGTGATGAATCAGAGAAAGATTAGACAGAGCAGAATATGCACAACTCTCACGAGGACAGGCTGCTTAGGAGCGAGCAGCACAGAGAGAAGAAGGAAGCAGGTTTTTGTTGTTTTTTTGTTTTGTTTTTCGAGACAGGGTTTCTCTGTGTAGCCCTGGCTGTCCTGGAACTCATTCTGTAGACCAGGCTGGCCTGGAACTCAGAAATCTGCCTGCCTCTGCCTCCCAAATGCTGGGATTAAAGGCGTGCGCCACCACCGCTCAGCTGAAGGAGGCAGTTTTGGGATGAAGAGAGAACAAGCCAGACACAGGTGAAGACAGGAGAGCCAGACAGTAAGAAGGAGCTGGAAGATTCGAACCTATTGCCAAAGCTAGTATGAGGTCAAGCAGAGCAATTCAGTCAAAGGCCAAGGGAGGAGCCAGATTGAATCGGTCAGCTTGGCAAGGCGTTAATTCGGCTGAGTTGAGCCAGCCAGAGCTCAGAGAGAACAAGAAAGGCTGATCTTATTCAGCAGCAAGTCTCAGAGGCTCAAAACATCCTAGGCCTAGATCAGATTGCATGGCGGCTAGAGGCTTCTGGGACTAGGCCTAGGTGAGCAGATATAGAGGAGCAAACCTCTGAGATGACAGTTATTTTAGGCGAATAAAAGCTACTTTTATTATGGCTTCATGACCTTGGGCCTGGGGTGAGACAGCGTTGTGGCAGAGGGGTCATGATGAGGCAGAGGTGTTCACCTCACAGCAGCTGGTAAGCAGAGAGGGTGCAGAGGAAGGGTTCTGTGGCAAGACGACCCCTTCCTTCAAAGCCTCAGCCCAGTGACCTACTGCCTCCAAACAGGCCCAAGCTCCCAAGAATGCCCCAGCCGTGAGCTCATCAAAGGACTAATGCAGCAACCAAGTTAGTATCTTCCTATGTAGTGATCACCACAGCTGGGGACCAAGCCTCCAATACGTGACTCTTTTGGGAAGACACTTTTGTGTATACGCTGTAAGAACTGCTTAGATGTATTAAAAGCATTTTGTTCTTGTTGGCCCAGTCAGTAAACTGCTTGCCAAACTAGGATGGAGACTTGAATTCAATCCCCAAGACCCCACTTAAAAACCACTGGGGTGTACCCCTGTAGTCCTACTGCTGGAGACGGGGAGGCAGATGGATTCTTAGGGCTTCCTGGCTGGCTAGCCTAGCCTACTTAGTGAATCTTGGGTCAGTAAGAGACCCTGTTTCAATGAAAGCAGTGTAGATGGCCCTGGAAGAATGTCACCTAAGGTTGTCCTCTGCCCCATACCAGTACATATACAAAAGGCATTATTTTTTTGTGGTGGTGGGGTGTTTCAAGACAGGGTTTTTCTATAGCCCTGGCTGTCCTGGAACTCACTTTGTAGACTAGGCTGGTCTCAAACTCAGAAATCCGCCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGCGTGTGCTACCATGCCCGGTTTACAAAAGCCATTCTTGATCTACAAAATTTTCAATTTAGGGGTTAGGGAGATGGTTCAGTGGGTAAGAGCACTGACTACTCTTCTGAAGGTCCTGAGTTCAAATCCCAGCAACCACAAGGTGGCTTACAACCATCTGTAAATGGATCTGATGCCCTCTTCTGCTGTGTCTGAAGACAGCTACGGTGTACTTACATATAATAATAATAAATAAATCTTAAAAAAGAAAACAAAGATTTCAACTTAGATAAATGTATCCTGTCCAAGCTCCATGGTAACTTAAGGAGCATCTGTAAGAAGAGATGTTCAGGAAATTCCAGATTGTGGCTTTAGGCACCTGGAATTCTAGCTGACTGTCTGTACTACAGTGGCCATGTTTGAGAAGCCCCCAGGAGGCATCTGTAGTCCTGTGTGGGTAGGTAGCTCCTGATCCTGCCCTGCTCTGTCACTCAGCTCTTCTCTTGTACCTCCTATGCCCCCTCCATAG
Seq C2 exon
GGCAAGACAGACTACTTCTTGAGCAGCGGTGACAAGATCCGATTCTTCTTTGAAAAAGGCGTTTTTGATGAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079484-Phyhd1:NM_172267:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.089 A=NA C2=0.050
Domain overlap (PFAM):
C1:
PF057218=PhyH=PU(21.0=98.1)
A:
NA
C2:
PF057218=PhyH=FE(10.1=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:
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: