BtaINT0110699 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015976 | PHF12
Description
PHD finger protein 12 [Source:HGNC Symbol;Acc:HGNC:20816]
Coordinates
chr19:20874160-20875590:-
Coord C1 exon
chr19:20874985-20875590
Coord A exon
chr19:20874342-20874984
Coord C2 exon
chr19:20874160-20874341
Length
643 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
CCATTTGTATGTGTGTGCAGCAA
3' ss Score
7.37
Exon sequences
Seq C1 exon
CGGGTGGCTTTGCGGGCGCTCGCGGTAAGTTTGCGCCAAGTGCGCGGCAGCCGGGACGCAGACGGCGGCGGCGGCGAGAGGCGGAGCCCGGGGACCACCCCCCATCACCCTCCCCGCAGTCACCTCACGTACCACAACCTCACCTAACCTCTCACCCCCCCACCTCCGATCCCCCCAACCCCGGGATGGCAGCGCCCGCCAGCCTTCCCGGCCGGACCAGCGGTCGCCAGCGCCGGCTCTAGCCTGTGGGACTAGGCCCCGCCGAGGCCTGACCCCCCCCCCGAGCCGGGACCCACCGTGCAGCCAGCCGCCGGGCCGGGGCTGAGGGGCCGCTCCCCCCTCACGGCCCGTGGGGAGGACGCTGCCGTCCCGGGGACTGGGGGCCGGGGGGTGGGGGGGAGCCAGGGCGAGGAAGTCGGGACCCGTGTTTGGAAAAAAGAAGAAGGGCCGGGGTCAGGAGCGCCCCCTCCCCCCGCTTCCCCCCTCCCCCCGGGGTTGGGGGGGCCGGAGCAGAGAGCGCCCAGCCCGGGAGGTGGATGAATGTGGGAGAAAATGGAGACCAAGACGATCGTGTACGACTTGGACACGTCGGGGGGGCTGATGGAG
Seq A exon
GTAAGAGTGGCCCACCTCATCCCCTTCCCCCAGCGCCGGGAGGGAACCTCCGCCCTCCGCCCCACAAAGCCGGCCCTGAGCTCGCAGCGCAAGAGGGCCGGGGGAGGGGGGCTTTTCCTCACCGAGACTCTCCCTCCCATCTTTGCAACTCGGGGGGCTGAGCTCAGCCGCCGAGGACGTTTGCAGCAGTTTCACCTACCCGCCGCCCTCGATTCGCTCTCCCGAAGCGCCAGCCCACTCCATCTCTTTGCACCGGCGGGCCTCCCCACCCCCTTCTTGTCGGCCCCTTTGTGCTTCCCCCAGCACGTCCGGGTACCGGGCTTCAGGCCCTTCCCGAGCCTGGCTTTGGAGTCCCCCACTGTCCATACAAGGAAGTGGCGAGAAGGGAACCGCGCACCCTCTCCCCATCCCCCTACTCTGATCCTCCCCATTTGGAAGAAGCGGTGCTCGTTGTGCGGCAGGAACGCGGTTAGGGTGGGCTCCCCCTGGTTCCGGGGGCTAAGAGGTTCTGGGAGCAGCCTGGATGGGAGGAAGAAGGACAAAAGGGGGGAGAGGGGTGGGTGACGGAGATGCTGCGCCGGGGGGGCGACGGACCGCCCGGGAGCTACGAGTGTGCACACACGCCATTTGTATGTGTGTGCAG
Seq C2 exon
CAAATCCAGGCTCTGCTGGCTCCCCCCAAGACGGACGAGGCCGAAAAGCGGAGTCGGAAGCCTGAGAAGGAGCCCCGGAGAAGCGGCAGGGCCACCAACCACGACAGCTGCGATAGCTGCAAAGAAGGTGGGGACCTCCTGTGCTGTGACCACTGCCCGGCCGCCTTCCATCTCCAGTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015976:ENSBTAT00000021255:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.091 A=NA C2=0.574
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0062824=PHD=PU(52.1=41.0)
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:
CGGGACCCGTGTTTGGAAAAA
R:
CAGTGGTCACAGCACAGGAG
Band lengths:
345-988
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development