BtaINT0111157 @ bosTau6
Intron Retention
Gene
ENSBTAG00000038831 | PHYHD1
Description
phytanoyl-CoA dioxygenase domain containing 1 [Source:HGNC Symbol;Acc:HGNC:23396]
Coordinates
chr11:99448981-99453739:+
Coord C1 exon
chr11:99448981-99449139
Coord A exon
chr11:99449140-99453663
Coord C2 exon
chr11:99453664-99453739
Length
4524 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
CTGATGTCCCCTCTCCACAGGGC
3' ss Score
12.37
Exon sequences
Seq C1 exon
TTTCAGGAGGATGGATTCCTGGTGCTGGAAGGGTTCTTATCTGCAGACGAGTGTGAGGCCATGCAACGGAGGATTGATGAGATCGTGGCCAAGATGGATGTCCCTCTCCACTGTCGCACGGAATTTTCTACCCAGGAGGAGGAGCAGCTGCGAGCCCAG
Seq A exon
GTAGGTGCCTGGAGCAGGCAGAGATGGGACCTGGTCTCTGATGGGCGGTGAAGCCTGGAAACATCAGGTCCCAAGGCCCATGGGTTCATTTTTCTGGCCTTGCAGCACTGTTCAGCTCTTAGTTCCCCAACCAGGGATAGAACCTGTACCCCCTGAAGTGGAAGCTCAGACCCTTAACCACGAGCCGCCAGGGGAGTCCCCCCATCAGCTCATTCTGATACTGAGTCAGGCCTTGAACTTTCTCAAGGCACCAGACTGTGTCTTATTTGCCGATTTCCTTCACTCCCTACTATGAATTTATAAAGTCAACGTTATTGCCCCCATTTGACAGATAAATTAAGGATAATTGAAGTTCAGTTCACATGCCCCAAACTACACAGTTAATCACTAATAGAGCCAGAACTTAAACCCAGATTTGCCGGATACCAAGTTCATGTTGTCACTGCTCTGCTGTACTTCCTTAGAAGTTTTCCTGCCACAAAGCACCACTTTGTGGCCACAATCCAAAACAAATGATTTTGATGGGCCTACCTGGGTAAGTCATCCCCCAGTGAGACTAGGAGCTCTGCTTGTCCCGCCCCTCCACCTGACTCCACCCCGGTGACCTAATGGGACTCAGTACAGTTTGAGATGGATAAGTTGAGACCCAGGGGTTCTCCCACACAGTTCTTGTAACCTTTCATAGCCTGATTTTATGAGCCTGCCTGCTGCTGGGCCCTCAAGCCAAAGCTGCAGTCCAGGGACTTCCCTGGTGGGTCCAGCGGCTAAGACTTTACACTCTCAGTGCAGGGGGCCCAGGTTCCATCCCTGGTCAGGGATCTAGATCCCACATGCTGCAACTAAAGAATTGCATGCTGCAATAAACATGGAAGATCCTGCATGCCACAACTAAACACCCGGCACAGCCAAGTAAATACATTCAGTTCAGTGCAGTCGCTCAGTCGTGTCCGACTCTTTGCGACTCCATGAACCGCAGCATGCCAGCCCTCCCTGTCCATCACCAACTCCCGGAGTTCACCCAAACCCATGTCCATTGACTCGGTGATGCCATCCAACCATCTCATCCTCTGTTGTCCCCTTCTCCTGCACTCAATCTTTCCCAGCATCAAGGTCTTTTCAAGTGAGTCAGCTCTTTGCATCAGGTGGCCAAAGTATTGGAGTTTCAGCTTCAACATCAGTCCTTCCAATGAACACCCAGGACTGATCTCCTTAAGGATGGACTGGTTGGATCTCCTCGAAGTCCAAGGGACTCTCAAGAGTGTTCTCCAACCCCACAGTGCAAAAGCATCAATTCTTCAGCACTCAGCTTTCTTTATAGTCCAACTCTCACATCCATACGTTACCACCGGAAAAAACATAGCCTTGACTAGATGAACCTTTGTTGGCAAAGTAATGTCTCTACTTTTTAATATGCTGTCCAGGTTGGTCATAACTTTCCTTCCAAGGAGTAAGCGTTTTTTAATTTCATGGCTGCAGTCACCATCTGCAGTGATTTTGGAGCCTAGAAAAATAAAGTCAGCCACTGTTTCCACTGTTTCCCCATCTATTTGCCATGAAGTGATGGGACCAGATGCCATGATCTTTGTTTTCTGAATGTTGAGCTTTAAGCCAACTTTTTCACTCTCCTCTTTCACTTTCATCAAGAGGCTCTTTAGTTCTTCACTTTCTGCCATAAGGGTGGTGTCATCTGCATATCTGAGGTTATTGATATTTCTCCTGGCAATCTTGATTCCAGTTTGTGTTTCGTCCAGCCCAGCGTTTCTCATGATGTACTCTGCATACGATAAATACACTAACAACCACAAAACAAGCTGTGGTCCAGGCTCAGTAATGGGGGCTCATGCTTACTCATGGCAATGAACTTCTGCCATCTGGTGGGCATAAAGGGAATTACAGTGACTGGAAGGCTTACTACGCAGAGAATGGGGAGTTGAGAAGGAAAGGGGGTTTATAGGATGACAGCTTTGCTCCCAACAGTAGGTTTCATTTGGCTGTACTGGTATCCAGTATATCCTCAATATTCACTACTGATACTGTGAAAGACTTTGAAATGGATGTTTAAAAAAGATCGGCAGGTGTCCTGTTCAGCTCTTCTTTCCAGCTTACCTGCACTTTTCATTGTTTTTTAAGTTGACAATCCTGCAAGTTTTGTGATAACTCAGTGATACTTGTCCATAGAAATGGGCATGAACTGGGTCTGGCAGGATGCAATTATTGATCGCCCCTGTGGCTGTATCAGTTTTGCACTGATCTGTAAATTCATTTCAGCGTTTCTTGGTGCCTATATTTGTGTGGTTCTTAAAATTCTCCTTTGAACATGTTGCTGGTTCCTTTGTGAATTACTGAGTTTAGTAACATCTTTGACATGCATGTAGCATCATTGTCTTTAATATTATTATCCATTATAAGGTTGAGGGCAGGAGGAGAAGGGGACGACAGAGATGAGATGGTTGGATGGCGTCACCAACTCAATGGACATGGGTTTGGGTGGACTCTGGGAGTTGGTGATGGACAGGGAGGGCTGGTGTGCTGTGGTTCATAGGGTCACAAAGAGTCGGACACGACTGAGAGACTGAACTGAACTAAACTGATGCTTCTGAGACTTGTTTCCCTCACCCTGATCCTAGTACAGAGGAACTGAGAATGTTGGAAAAAACCTTTCAGTTTTCAGTGGGAAGCTGAAAGTTTTCAAAGAACCACTATGAGTCACTGATTTGAGCCAGGCAGGCACCTGTGATAGCAGATGTGTTCAGGTGAGTAAGAGGTGAGGCTCTGCCTCCTGGGAACCCAGGCAGGGGCATCACTCAACTGTCCTTAAGTCACCACCCTGGGAGGAAGATTATACATGTGTGTCGTGTATATACAATCTTCCTTCCATGGTGACATCGGCTCAGTTGAGTGACACCAATGCCCCTACTTGGAAGGAAGATGATGTGTATGTGTGCTTCGTGTATGGGCTTACCTGATGGCTCAGACATCAAAGAATCTGCCTGCGATTCGGGAGACTGGGGTTCAATCCCTGGGTCAGGAAGATCCCCTGGAGAAGGGAATGGCAACCCACTCCAGTATTCTTGCTTGGGAAATTCCATGGACAGAGGAGCCTGGCGGGTTACAGTCCATGGGGTTGCAAGGAGTTGGACACGACTGAGCAACTTACACTTTCACTTTTACTTTTCATTGAGTCTGTTCATATATATTGGAGAAGGCAATGGCAACTCACTCCAGTACTCTCACCTGGAAAATCCCATGAACAGAGGAGCCTGGTAGGCTCCTCGGCATGGTGATCATGTGTGACCAAAGCCACAAGGAAAACAAGGGACATCTTCCTGGAGCATCATTTTCAGATGATGCTAAGAAATTTGAAATATGATATTAAAATTAACAAGGAGGAGTTATTAAGAAAAAGATTAGTAATAGCTTATATTTAGAGAGCATTTAGTCATGCCCTCACTGAGTGTTTTCTATAATAATAAACGCAGATATTCACATGACACCATTTATTCCAAGGACTGTTCTAGAGTCTTATGTGTGTGTGTGTGTACATGTGTGTGTGTGCATGTACGTGCTGTCATGTCCAACTCTTTGTGACCCCATGAACTGTAGCCCCACCAGGCTTCTCTGTCCATGGGATTTCCCAGGCAAGAATACTGGAGTGGGTTGCCATTTCCTTCTCCAGGAGATATTTCCCCACTCAGGCATTGAACCCACATCTCCTGCATTGGCAGGTGAATTCCTTACCACTGAGCCCCTGGAAGCCCAAGAATAATAAGGGGCAGATATTCACATGACACCACATTCCCAGCAACTGTTCTTGTGCTTTATATATGTTGTTGTTCAGTCACCAAGTAAACAGCATAATCCCTACAACACCCTATGAGATAGGTGCCTTTAGTAGCCTGTGTATTTTATGAGGAAACCAAACCCGGAGAGGTTCAGTAATGTGATTGTGGTCACAGCCCATCAGTGGCAGAGCTGGGATTTGAACCCCAGTATTCTAGCTCCAGGGTTTCCCAAGTGGCCCAGAGCTCCCTGGGAACCAGGCCTCTTTGATCATGCCATTATCGGGTATGAGTCATGTGATTTATTAAGAGGTTTCCAGGGGGACTTCCTGACGGTCCAGTGGTAAGATTCCATGCTCCCAATGCAGGGGGCCCAGGTTCGATCCCTGGTCAAGGAACTAGGATCCCACATTCTGCAACTAAGAGCCCGCATACTGCGACTAGAAAAAAGATCCCGCGTGTCACAATTAAGACCTGGTGCAGACAAATAAATTAATTAATTAATTAAAAAAAAAAGAGGTTTCCAAAAACTTCTGTGCTTGTAGCTTTGGACTGTGCTGTCGGGCCCTTGGGTTTCCAGTTTACCATCTGTGTTGCATTGAACAAGTCTGAGAAGCATCAGTGGAGTCTGCAGCTCTGTGCTGGGTGCAGGATGGGGGGCCCTCTGAATCCTCTTCCCTCTCTGTCAGGCCCAACTGTGACCCCGGGATGCTCTCTCAGTCCCTCTGATGTCCCCTCTCCACAG
Seq C2 exon
GGCAGCACAGACTATTTCTTAAGCAGCGGTGACAAGATTCGATTCTTCTTTGAGAAAGGCGTCTTTGACAAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000038831:ENSBTAT00000055396:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.000
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
Other Skipping Isoforms:
NA
Associated events
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