BtaINT0110733 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016958 | PHF19
Description
PHD finger protein 19 [Source:HGNC Symbol;Acc:HGNC:24566]
Coordinates
chr8:112146934-112147961:-
Coord C1 exon
chr8:112147800-112147961
Coord A exon
chr8:112147022-112147799
Coord C2 exon
chr8:112146934-112147021
Length
778 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
TCCTTTTTCTGTCTCCACAGTTT
3' ss Score
11.72
Exon sequences
Seq C1 exon
GTTCCTCTGCGGCAAGGAGATCAAGAAGAAGAAGTGCATCTTCCGCCTGCGCATCCGTGTCCCACCCAACCCGCCCGGGAAGCTGCTGCCCGACAAGGGCCTGGCGCCCCCCGAGCACGGCGCCGCCTCCGAGCTGCGGAGGAGAGGGAAGAGCAAGCCCAG
Seq A exon
GTCAGTGCCCGGGACCCCAGGGCGGGGCCGCGGCCGGCCTTGGGCTCTCTGCGCCCCGCTCCAGCGCCAGCCCCCTCCGACGGGCTGTGCGGTGACATCGGAGGGAGCGAGGGCAGGACTCCGGCCAGTTAGTCCCAGCCGGAGGCGCCCTCGGGGGCCAGTCCGTGGCTAGGCCGGGGCCTGACCCAGGCCCCACTGCCTCCACCACAGCCTCTCGCTGGCCTTGCTCGGAGGGGAAGCCGGGAACCAGTCTTGCTGGCTTAGGGCCAAGCCAGCGAGGCGAGGGGCAGTGAGAGTGGGGGAGGGGTCCCTAGCGCTCCTGGCTTCTTCCCAGGTGGCGCTGGTGGGAAAGAACCTGCCTGCCAACACGGGGACAGAAGAGATGTGGGTTTGATTCCCGGATCGGGAAAGATCCCCTGGAGGAGGGCATGGCAACCTACTCCAGTATTCTTGCCTAGAGAATCCTCATGGATAGAGGAGCCTGGCGGGCTGTGGTCCATGAAGTCACCGAGAGTCGGACACGACTGCAGTGACTTAGCAGCAGCAGCGCTCCTGGCTGAGACCAGCCCTGCTTCCCGGGCATTGGGGGGTGGCGGGCAGAGCTCCTGGACGCCTGGGTGAGGAGCGGTGCCACCATACCCGCCTCCACCTCCCAGCCTGCAGCCCCCAGTTCCCCAGGGCTCCCCCGGAAGGACAGCCTGTCCCCACGCTGACCCCACCCATCCCCTGGGCCTTCGGGCTCTGACCGGGCTACTGTCTCCTTTTTCTGTCTCCACAG
Seq C2 exon
TTTGTTGCCTCATGAATTCCAGCAGCAGAAAAGGCGAGTTTATAGAAGAAAAAGATCAAAGTTTTTGCTGGAAGACGCTATCCCCAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016958:ENSBTAT00000022557:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.491 A=NA C2=0.300
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCTGCGGCAAGGAGATCAAG
R:
ACTGGGGATAGCGTCTTCCAG
Band lengths:
246-1024
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]