GgaINT0132401 @ galGal3
Intron Retention
Gene
ENSGALG00000004029 | PHF12
Description
NA
Coordinates
chr19:5847649-5848374:-
Coord C1 exon
chr19:5848292-5848374
Coord A exon
chr19:5847788-5848291
Coord C2 exon
chr19:5847649-5847787
Length
504 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
TCCTTCTTCTCCTCGCTCAGAAC
3' ss Score
7.88
Exon sequences
Seq C1 exon
GAGCCGATATGGATGTGTGCCTTACAAGCTATGGTCACTGTAACTACGTGTCCGGCAAACACGCCTGCATATTCTACGATGAG
Seq A exon
GTGAGAGCCCGAGCCTTTCTTTGCTTGGCATGCATGGCAGTGGGAGCTGGAGATACAGGCAGCAGGTTGCCTTTGTGCGGTGCTCCTTTATGGGACTGCAAAGTAGGAGCCAGAGCTGTGAATGGTTTCGCTCCATGGAGGCTGCGTCAGCGTTTTGTGTCAAACCCCTTTCTGAAGCACGGAGCTCTGCCAGCATGGTTGCTCTGAGCTGAGTGCTCGTGGACAAAGACTGACCACAAGTGAGCACTGTCACTGCTGGCGTCCAGGGAAAGAAAATAGCACAGAAATGGTTCGATCCTATTTGACCCAGCTGATATTTAACTAAAATTTTAGTGCAAACAGAGAGCTGCCCCTTAACTGCAGCCCGGAGAGGAGTTTGCTCATGAAGTAAACAGAGCAGGCTGCCCATAGAGGTGCCACTGGAGATCCGTTCCTGTTTAACCATCAACAGCAGTAGGCAGGGAGGGGGTTGTGTGTGATCGGTTCCTTCTTCTCCTCGCTCAG
Seq C2 exon
AACACGAAACATTACGAGCTGTTGAACTACAGCGAGCACGGGACGACGGTGGACAACGTTCTCTACTCGTGTGACTTCTCAGAGAAGATGGCTCCCACTCCTCCCAGCAGTATTGTTGCCAAAGTGCAGAGTGTGATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004029:ENSGALT00000006417:13
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=0.021
Domain overlap (PFAM):
C1:
PF0049821=FHA=FE(41.5=100)
A:
NA
C2:
PF0049821=FHA=PD(47.7=66.0)
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:
GAGCCGATATGGATGTGTGCC
R:
TTATCACACTCTGCACTTTGGCA
Band lengths:
222-726
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]