BtaINT0110740 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016958 | PHF19
Description
PHD finger protein 19 [Source:HGNC Symbol;Acc:HGNC:24566]
Coordinates
chr8:112152889-112154765:-
Coord C1 exon
chr8:112154617-112154765
Coord A exon
chr8:112152985-112154616
Coord C2 exon
chr8:112152889-112152984
Length
1632 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGG
5' ss Score
5.42
3' ss Seq
TGGCTCCTCTGGCTCTCCAGATG
3' ss Score
8.61
Exon sequences
Seq C1 exon
AAAGGCGGCGCGCTGAAGAAGGGCGCCATCGCCAGGACGCTGCAGGCCGTGAAGATGGTGCTGTCCTACCAGCCCGAGGAGCTCGAGTGGGACTCCCCCCACCGCACCAACCAGCAGCAGTGCTACTGCTACTGCGGCGGTCCTGGAGA
Seq A exon
GTAAGGCGGCGGGGCGGGGCGGGGCCTCCCCGACGGGCGTGGTCTCCCTGGTGGGCGGGGCTCCAGGGAGGCAGGGGCGAGGCTGGCTGGGGTAGCCGGACCCCCAGAGAGGAGCCCGCAGCCTCCCACAGGCTCTGGAGAGCCAGAGGCTAGCACTAGGGGGAGGGGGGGCGCTGGGGGTGGAGGTTTTCTTGGGGCTCCATGGAAGAGAAGGAAGTGTCGCACAGCGGTTAACAGCCTGGTCCCGAGTGTCCACGTTCTCCCAGCCCCTTACAGCTATGCTGTCCCTGAGCTCCATTCTCATGACAGCTGTCCCGTGGCTTGGGGGTTGTGAGTAGAGCGTGATTTAGATCATTCATGTAAAGGCTCACACAGTGCCTGGCACTTGGCAAGCACTTAATAAATGTGAGCTCTTCCTGTTGGTGCATGGACGTTTGGATAAACCTTTCCATCATCAGAAGCAGTGAAACAGGTTGCTGGTGAGAGATGAAGGTCCTTTTCCCTGGAGGTGTGCAAGCAGGGCTGGGCATGTGTGAGGAACTTTGGAGGGTGTTCTCACCCTGACTATAGAACAGGAGCCTTTCTTTGATTCTTCCTTGTGGCCTGGGCCTGCGTGTAGCTGTGGGCGATTGAGCCGGTTCCCTTGGGTTGACTGCACCAACCTTGTGGGAAGAACCACAGGAGTGAGAGATGGAACCTCTGCTCGCAGGGAACAGCCCACAGGGCGCCCTGAAGTCCTGAGTCTCAGCCCCCAGTTCTGCTGACAAGCCCTGGGGGTCTGAAGGCCGTGCTTACAACCTAGCTGGGTGATTTGGGCAAATCACATGAAGTGCTTCATCGAGATTAATAACCTTGGCCCATCACCTTCTGTGGGTGTTGTGGCCTTTGGGATTACAGGTGGAGACATACTTATAGAGACCTTTGCAGCACTGAGGTGGTGGTTCTCAATGCTTACAGGGCAGAGTTGCTCGGGCGATTGTCAAATATGCATCTCCCTGGGGCTGCCCCAAGACTGAGTAGACCTGGAACAGGTCCAGGAATCTTCTGCATTTTAACCTAGACTCCAGGTGATTCTGACGCAGGTGGTCCATGGACCACACCTGTCAAGTGTGTTAGTTAAGAAAATACCTTTTTTGGTTTTCATTCTTATTCAGTGAGTAGTTGTTGAATGGTTTTAACAGGATGGATACAGCCTCAGGTGAGGGGCTCACAGGAGCCTTTATTTTCCCATGAAATGCCCTGGGCAAACCTTTCCCCATCAGTGGTGCTTGGGAAGCAACGTGTGGGGCACAGACCCGAGAAGAGGGCTCCAGTGGGTAACAAAGAGCATGGGCTCTGGAGTCAGGAGGCTAGGATCTGAGTCACTCTCCACCCCTTGCCTCCTGAGCAACCTTGAACAAGCTATCTGTAAAATGGGAACAGAGGCCCGTGTTTGACCAACTGGGTAGAGCAAATGATACCATGTTATGTCCTGCTGCTCAGGCCTCCCCTGGCACAGCCCAGGGCTTGGTAACTGTGAGTTCTCTTCCCTTTCCCCCGCTGGAGGGCAAGTTTGTGTTGGGGAAGGTTGCTGAGGCCGATTCCTGGCTGGGAGTGCGGGCCTGGCTGACCCTGGCTCCTCTGGCTCTCCAG
Seq C2 exon
ATGGTACCTGCGGATGCTGCAGTGTTACCGCTGCAGGCAGTGGTTCCACGAGGCCTGCACCCAGTGTCTCAATGAGCCCATGATGTTCGGTGACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016958:ENSBTAT00000022557:5
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:
PF0062824=PHD=PU(15.1=16.0)
A:
NA
C2:
PF0062824=PHD=FE(60.4=100)
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:
CTGAAGAAGGGCGCCATCG
R:
GTCACCGAACATCATGGGCTC
Band lengths:
231-1863
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]