GgaINT0132391 @ galGal4
Intron Retention
Gene
ENSGALG00000004029 | PHF12
Description
PHD finger protein 12 [Source:HGNC Symbol;Acc:HGNC:20816]
Coordinates
chr19:5895277-5897249:-
Coord C1 exon
chr19:5897177-5897249
Coord A exon
chr19:5895665-5897176
Coord C2 exon
chr19:5895277-5895664
Length
1512 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAG
5' ss Score
9.06
3' ss Seq
TGCCTATTCATGTCGTGCAGAAG
3' ss Score
5.57
Exon sequences
Seq C1 exon
CAACCCTCCGCTCAGCGAGGAAATGCTGCCTCCAGGGGAGTGGATGTGTCACCGCTGCACCGTGCGCCGAAAG
Seq A exon
GTAAAGCCTCTTGTGGGAGAGAAGTGTGCTCTCTGCCTCTCAGCTGTCCACGCTTGTTCCATCTCCTCTCCCCTTCATCTCAACATACATAGTGCCAGAGTTGCTCTTTATGCTCAGAGTTATGTAGAGCTTTGTTTAGAAAAGGTTTCGAGAAAACCGAAGTGTATTGATGAGACCATCCTGATAGTTGTAATATTGTTACCAAGAACCACAAAATTGAAGCACCCGACCTGTTTGTGTCAGGCTGTGCCTTTTAAACTGCTTTCCTTTTCTCCCTTTACGGAGAGGAGGGAGAACTGAGGCACGAAGGGAAGGGCTCCCATGCTGGAGGAGGTGAGTTGCCTGCAGGTACGGCAGGATTCCTGTTAACGCAGCTTTAGCATCAGGGTTGTGATTGTGGTTAATGTGTGTGGGGTTTTGTTTTGTTTTTTTTTTTTAGAAATGTGACTTCACAGCAATTGCACATCAGCAGAGGGTGAAATCACAGCGAGCTGTGATTTCCTGGGCTGTTGATCAGGATGGGGAGATGACTGAGCAAGATTGTGGCTTGTCTTCTTTGCCTTGGTACTCTTTGTCCAGGAAACTGTCTTGCACAATGTAAACATCTTATCGCTGTGACTACGTGAGGCTGCGTAACAGAGGGTTTAGGAGCTCTGCTGAACTATCTAGCAGTTGTTCTCTTGAAGTGACACCCAAAACAGATTTTTTTTGTTACCGAAGCGATTCCCTTGGTATGTTTCCAGGGTACTGCTCAGGCATCTGCTGACAGCAAAGAAGAAGGTCACAAATGAAATAACATTAATATAAATTTCAAAAGCACGGCACCAATGAAAAGACTCCTCTGTATTAAAAATCTCTCCTTTTGCAGACCACTTCATAATGATGGAGTAGATGGGTGCTGGCAGGCACATATGGTACTCGGCCATGCAGCTGCCCCTCCTTGCAGAACGGACCTCTCAGTGATGGCAGTGTATTGTTTTCCTCTGCTGCAGTTCTCTCTGCCCACCTTGTTCATGAGTCCTGGTGTCAGGCGATAGCAGAGTGTTTTTTATGTTGTGCTTGTATTCTCCAGCTGACCTTCTTATTCTGTAACGAGTTTGGATGCACTGCCAAGGTTAATAGACTGCATCGGCAATGAATGACCTACCGTGGAGATTCGGTGTTGGCTAGCAGAGTAAACAGAGTTGTCTGATCAGAGAGGTACTTAGGACTAGATGCTGTGAAACGTTGGCCTGATCTGGGCTCAAGTACAGCTGTCCTGAGAGGAGAGGGAGATGCTCATTTTCTTCCCTGTGCTTGGTGTTCCCTTCAGCTGCTTTGTCATCTGTATGTTTTTGTCATCTGCAATCAAATTGCTTTTGCTAGGTCAAAGCTTTAGTGACTTCACAGGTGAAGTTGTAGTAAGTGGCTCAAGCTTTTTCAGATGCTGTTTGTCTTCGGTTGCTTGTTTGTCAAGGTTGATGTGCTTTGTTTGTGGCCTCCATGATAAGCCTGCCTATTCATGTCGTGCAG
Seq C2 exon
AAGCGAGAACAGAAGAAAGAGCTGGGGCAGGTAAATGGATTGGTGGACAAAACTGGGAAAAGGACCACCTCCCCAACCAGTGACGCAGACCTGTTGGACAGGTCTAGCAGCAGCATCAGGGCTAATGCGCATGCCAGGATCTTGGAAAGGAGAGCAAGCCGGCCTGGCACTCCCACATCCAATGCCAGCACCGAGACCCCCAACTCAGAGCAGAATGATGTCGATGAGGACATAATTGACGTGGATGATGACTCTGCCATTGCAGAAATGGACTGTGGGCAGCCCCAGCTGAAGCGACCCTTTGAGCTTCTTATTGCTGCTGCCATGGAAAGGAACCCAACGCAGTTCCAGCTGCCGAATGAATTGACCTGCACCACAGCACTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004029:ENSGALT00000006417:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.200 A=NA C2=0.777
Domain overlap (PFAM):
C1:
PF0062824=PHD=PD(45.8=88.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCAGGGGAGTGGATGTGTC
R:
AAGCTCAAAGGGTCGCTTCAG
Band lengths:
353-1865
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]