GgaINT0132399 @ galGal4
Intron Retention
Gene
ENSGALG00000004029 | PHF12
Description
PHD finger protein 12 [Source:HGNC Symbol;Acc:HGNC:20816]
Coordinates
chr19:5884969-5886950:-
Coord C1 exon
chr19:5886807-5886950
Coord A exon
chr19:5885068-5886806
Coord C2 exon
chr19:5884969-5885067
Length
1739 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
GCTTTCTCTTTATCTTGCAGCGC
3' ss Score
12.02
Exon sequences
Seq C1 exon
AGATTGAGATAAATATGCTGGATGAGCAGCTGATCAAGTTTCTGGCCTTGCAGAGAATACATCAGCTCTTTCCTTCCAAAGCTCAGTCTCTAGCAAGCAGTGTCAGTGCCCATCAGCAATCTCCTGTGGCAAACCACATTGAAG
Seq A exon
GTAAGAGCAGTCCTAGAATAGCTGGGTTATGTTGAGCCTTACCCTTCTGGCACTTTTGCCTGTTCCTTGAAGGAGATCTTCACTCTTCCTTTGGTATCTGCTTGATGCTGCCTTTCTTTCTTTGTGTTTCCTTCTCTGGATATCTGCTGGCCAGGGACAATTCCAGGTCCCTCTGCTAACTTGTTATGCAGTGAAAATACCTTCAGTAATGTGTCAGTGAGCCTTCTGGTTTTCTGAAGATCTTTAGTGATGTTATGTGTTACTCATCTTCGCACAAGATGGGAAAGTTCCGTTCTCCTCTCCCCATCTTTGAGATGGGCAAGAGAAACATGTCTCAGATAAACATGTGATAATCTCCACAGGCCTGAGTTCAGCTCTGATCGTGGGTTTCAGCATTACTAACACCACAAGCTGCACGGGGAGCGTGGCTTCCTGTTCCTCTGCATGCAGTCGTTCAATTTGATCTGCTTTCAAGCACTAAGAGGACGGCCTAGTTGTGGGAGCAGTTGTCTGCTCCCCCTCTGCTAGGTCTGGGGCTGAATATCCCAGATAAGGTCTTTGGAAGCCTGCTGGCATGAGTAACCTTCTTCTGAAGCTCTGTGCTTGCCTGCTTACTTGCTGCTGTAGCATCACACTGCTTTCTGAGTACTTTGTTGATCATCTTTTGAGCACTGCTGTAGGATACGGCACCAGGCTGTGATCAGAGCTGCTTTCCTGTGCTGCTCTGAACCAACCAACTCCTGGAAATTCTTCAGCACTCTGCCTCCCAACAGGCAGATTGATGCTGTCTTAACCCACGGCCCTTTCTGGACAGGATGGATGCATCCAGCTGACAGTTCAGCATTACTGACAGTAGATCTCCAACCTTTTGTGAGCACTGTTGAGTCAGCAGAGCCAGACAGCTGAAAGGACTCGTGCTGAGGTGGCAAGCTGCACATTTCAACTGTGCCGAGTGCTGCACGTCCAGGGATGCCACTCAGTGTGGCCGTTGTTCCTGACATAGGTGACTCTGCAAGCAGTCTCATAATCCTCGTGTTCTGCTCTTTGATTTCACACTCTTGGCATAAAACTGGCCTGCAGATGTGGTGTTAGAAGAGGCTCTGTGCGTATAAAGGGCTTATCTCCAAGAGACAGCTGCTGAAATCCTGACAGCCCTGCGTGGCCTGCAGTTTGATATCTGTTCCACAGAAAATGATTTGCTGCCCAGTTAACGCGGGTGTGTGTGAGAATGATTTGAACCTGGCTGCCAGGAAACTGCTGCAGGGACTGACCTGGGGGTGAAGCAGTGCTCTCAGTACGTCAGTCCGTGCTGGGAATGGGGTTAATCCCTGGACAAGGCTGCTCAACCTGTGCCTTTCCTGCAGCTTCTCCAGAAGCGGAGCTGTGACGTTGGTGATGTTCACCAGCAGCACTTTCTGTAAGCAGTGCTTTGCCAGCAAGGCACGAATCTGATTACCCAAAGTGGGAGAGATGAAGAAAGAAGCTGGGAGTAGTGAGCTCCTGTTCTCAGCATGGCTGTGCTGTGCGTGCTTTGCACTTGCATGGCTTCTCTGTGTTACTGGGAAGAACGATCCTCCCTACTGATAAGATGCCTTATCCACAAACGGTCCTGGAGGGTCGCAGAGCTGGAGCTGAGGCGAAAGCTGACTGCGTCCCCCCTCGGATCTGTGCTCTCTGCTGGCATCAAGCAGCCCGTGGAGCTGATAACATTGTTCAAGTGCTTTCTCTTTATCTTGCAG
Seq C2 exon
CGCAAAGAAAGGAAGTGCAAGCCCGGGCAGTGTTCTACCCTCTGATGGGCTTGGGGGGTGCAGTCAATATGTGCTATCGAACCCTCTACATTGGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004029:ENSGALT00000006417:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.102 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0049821=FHA=PU(7.7=14.7)
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:
TGGATGAGCAGCTGATCAAGT
R:
TGTCCCAATGTAGAGGGTTCGA
Band lengths:
224-1963
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]