BtaINT0110702 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015976 | PHF12
Description
PHD finger protein 12 [Source:HGNC Symbol;Acc:HGNC:20816]
Coordinates
chr19:20838012-20838878:-
Coord C1 exon
chr19:20838780-20838878
Coord A exon
chr19:20838095-20838779
Coord C2 exon
chr19:20838012-20838094
Length
685 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
CTGCCCTCCGCCCCTCGCAGGAG
3' ss Score
9.28
Exon sequences
Seq C1 exon
TGCAGAGAAGGGAAGTACAGGCCCGAGCTGTGTTCTACCCCCTCTTAGGGTTGGGAGGCGCTGTGAACATGTGCTATCGAACCCTCTACATCGGGACAG
Seq A exon
GTAAGCCAGGTGGGAGGGGCGTTGAATCTCTCCAGCCCTGAAGAGGAACACCCTGACCCATGGAGGCTAGAAAGGGAGGGACGCCCTCTCCAGGTTTAACCCAGCAGATGTCTGGACAGGAGGGACTTTAGGGACTGTCGGCTGCCATCTTCCCACTTCAGGCCTTGTGCCCCATGTGGCATCAGACTGTCCGGAAGTCAGCCCTGACTGCTGCTCAGTGAGCATTCAACAGCACAGGAAAGACCTGAGCAGAGGGCACGTGCTGTGTCCCTGGCGACCTTTGAAGAAGTGGTGGGGCTGACACGCGTGTAACCCATACTGGGCCCTGCGTCTTGCCAGAGGGACAGGCAGGCCCTTAGCCTGGATGGGTCCCTTTCTCTCAGATGATGCTGTTTCTGGGCCATGCACCCCATGTTGTGCTCGCATGGAGATCACTCCCTGCACCCCTCTGGGCAGCATCCCACGTTCTGAAGCACATGAGCTGGCAGGGACGTCTGTTCTTTTACAGGGGATTGGAAAAGAGAGCAGTTTTTGTTCGAAAATATAAGGAGAGGGCCCTGAGCTTACCTGTCCCTTGAGTTCCCACCCAGAAGCTAACTCCCACCCTGCTCAGCTCCCCCGCGCATCCACCTCACAGTCTGTTCTTTGCTTTCCTTTCCTCTGCTCTGCCCTCCGCCCCTCGCAG
Seq C2 exon
GAGCTGACATGGACGTGTGCCTTACAAACTATGGTCACTGTAACTACGTGTCCGGGAAACACGCCTGCATATTCTACGATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015976:ENSBTAT00000021255:12
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=0.000
Domain overlap (PFAM):
C1:
PF0049821=FHA=PU(7.7=14.7)
A:
NA
C2:
PF0049821=FHA=FE(41.5=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:
TGCAGAGAAGGGAAGTACAGG
R:
CTCATCGTAGAATATGCAGGCGT
Band lengths:
182-867
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development