BtaINT0110703 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015976 | PHF12
Description
PHD finger protein 12 [Source:HGNC Symbol;Acc:HGNC:20816]
Coordinates
chr19:20837311-20838094:-
Coord C1 exon
chr19:20838012-20838094
Coord A exon
chr19:20837450-20838011
Coord C2 exon
chr19:20837311-20837449
Length
562 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
TCTTCCCTCCTCCTCCTCAGAAT
3' ss Score
9.93
Exon sequences
Seq C1 exon
GAGCTGACATGGACGTGTGCCTTACAAACTATGGTCACTGTAACTACGTGTCCGGGAAACACGCCTGCATATTCTACGATGAG
Seq A exon
GTGAGGGTGCCAGAGAGCTCTGCCAACCTGAGGCCTCTCCCAGCACTGGGGTTTTGTTCAGTGCCCTGGGTGAGGGGAATGGGATGGGGTCCTCTCCTTCTCTTGCCTCCCTGGCATTCCCGGAAGAGAAGAGCCTTAGGGTGAAGGGCATCCGTCCTGGGGAGTAGGGCCCCTGTTTCTCCTGAGGTGGGTCAGCAGGCCCAGGGAGGGACGAGGCACCCTAAGTGGGGCGGGGCGGCGCAGGGGGACCCACATAGAAGGAACCAAGCCCTCCAGGCGTGTCCCTGTGGGTTTCATCATCGTCGTCATCACGTGCCAGTGAATGTCATTTCACCAGGAGCCCGTGCTAAGGAGGCAGCGTAATGGGAGGGTAGGAAAGAAAGCTTTCTTGAGGACATGAGTCTTGAGCCCATTGGAAGGGGCAGGGCAGCGGGGCGTGACGGGGAAGGAAGGAGGGAGCTCCCCGGTAGAGCAGCACAGCCTTCTCCATGTGTCCTCTCTCCCCTTAGCCCCAGGCCCCACGCAGCAGACCACACATCTTATCTTCCCTCCTCCTCCTCAG
Seq C2 exon
AATACCAAACATTATGAGCTGTTAAACTACAGTGAGCACGGGACAACGGTGGACAATGTGCTGTATTCATGTGACTTCTCTGAGAAGACCCCGCCAACCCCCCCAAGCAGTATTGTTGCCAAAGTGCAGAGTGTCATCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015976:ENSBTAT00000021255:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.170
Domain overlap (PFAM):
C1:
PF0049821=FHA=FE(41.5=100)
A:
NA
C2:
PF0049821=FHA=PD(47.7=66.0)
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:
GAGCTGACATGGACGTGTGC
R:
TGATGACACTCTGCACTTTGGC
Band lengths:
222-784
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development