BtaINT0111156 @ bosTau6
Intron Retention
Gene
ENSBTAG00000038831 | PHYHD1
Description
phytanoyl-CoA dioxygenase domain containing 1 [Source:HGNC Symbol;Acc:HGNC:23396]
Coordinates
chr11:99457900-99458549:+
Coord C1 exon
chr11:99457900-99458026
Coord A exon
chr11:99458027-99458134
Coord C2 exon
chr11:99458135-99458549
Length
108 bp
Sequences
Splice sites
5' ss Seq
CTGGTAGGT
5' ss Score
8.37
3' ss Seq
CCCCCCTCCGTCCTCTGCAGGCT
3' ss Score
11.73
Exon sequences
Seq C1 exon
GGGCCCTCGTCCTGATCCACGGAGAAGTGGTTCACAAGAGTGAGCAGAACCTTTCTGACCGCTCGCGCCAGGCCTACACTTTCCACCTCATGGAGGCTGCTGGCACCATCTGGAGCCCAGATAACTG
Seq A exon
GTAGGTGGCAGGGCTGTTCTGTGCCCCAGACGGCTCCTGAACAGGCCTGCCCTGGAGGCCCTGGACAGTGCTTCTGGCCCAAGGTCTTCCCCCCTCCGTCCTCTGCAG
Seq C2 exon
GCTCCAGCCGACCCCTGAGCTGCCCTTTCCCCCACTGTACACCTAAAGGCCCTCTCAGGGCGGGGACACGTCCACTCTTGGGTGAAGCTGCGGGCCACCAACACCAGCGCCTTGCTCAACTGCCTGGCCTCAACAGGGAAGCCACGTCTCTCCTCCAGGGATTTTCTCATGCTGGTGTCTCTGCAGACAGGCGGGCACGAGGTGGTAGCCTGGTAGCAGGAGCCCGGGCTGGGTGCCCTTCCTGACATCTCTCTCTGCTTTTCCCTACCCTAACACAACCTGCCCCGAGACGCAGCCTCACAGCCATGAAAAGGGTTCTCGCTGCTTCTTTGCCGGCTTCTCAGTCTTCTCCCCTCTCGATGGAAGTCTTGGTCAGTATGGTGGGAGACACTGAATAAACATGACTTCCAAATGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000038831:ENSBTAT00000055396:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.023 A=NA C2=0.067
Domain overlap (PFAM):
C1:
PF057218=PhyH=PD(9.7=55.8)
A:
NA
C2:
NO
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:
AGGCCTACACTTTCCACCTCA
R:
CTGCAGAGACACCAGCATGAG
Band lengths:
244-352
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development