GgaINT0132400 @ galGal3
Intron Retention
Gene
ENSGALG00000004029 | PHF12
Description
NA
Coordinates
chr19:5848292-5848977:-
Coord C1 exon
chr19:5848879-5848977
Coord A exon
chr19:5848375-5848878
Coord C2 exon
chr19:5848292-5848374
Length
504 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TTTGTCCTCCCCGTTGGCAGGAG
3' ss Score
7.73
Exon sequences
Seq C1 exon
CGCAAAGAAAGGAAGTGCAAGCCCGGGCAGTGTTCTACCCTCTGATGGGCTTGGGGGGTGCAGTCAATATGTGCTATCGAACCCTCTACATTGGGACAG
Seq A exon
GTGAGTGGCTTTTCCCCAGCATCACCTCCTACGTTCAGGGTGGCTCTCCCTGGCCCTCCCCGTGTGTTCCAATGGGAGGTGAGTGCTGCTGCTGGGACTCCTCACTAACAGAAACACAGAAGTCCCCCCTGCAGCAGGACTTTTGCTGCAGGGCTGTGCCCGTGTAATATGGCTCTCAGCAGAGGGAAGAATTAAGGTTTGCTTGCGGGTTTTGTTTCTCGCTGCTCACGTCCCTTTGGCACTCTGGGATGGCCCGGTAACACCTAAATGCTGCTCAGCCCTCCTGCCTGTGCAGCAGCTCGCTCTCCCTTCCCCCACTGAAACTTTGTTCGTGGCTTATCGCAGCATTATTCATGCAGGCCTGGGAGTGCGGACAAAGGCAGTTGCTCCCCTGTTGTTTTGCTAATTGAAGTTTAATTCTGTCTGTTGTTCTCTGCTGCCTGGCGGTTCTTTTTTTCCCCCTTTCTGAAACGAACTGAGCATTTTTGTCCTCCCCGTTGGCAG
Seq C2 exon
GAGCCGATATGGATGTGTGCCTTACAAGCTATGGTCACTGTAACTACGTGTCCGGCAAACACGCCTGCATATTCTACGATGAG
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=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0049821=FHA=PU(7.7=14.7)
A:
NA
C2:
PF0049821=FHA=FE(41.5=100)
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:
CGCAAAGAAAGGAAGTGCAAGC
R:
CTCATCGTAGAATATGCAGGCGT
Band lengths:
182-686
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]