GgaINT0132394 @ galGal3
Intron Retention
Gene
ENSGALG00000004029 | PHF12
Description
NA
Coordinates
chr19:5856544-5857537:-
Coord C1 exon
chr19:5857405-5857537
Coord A exon
chr19:5856709-5857404
Coord C2 exon
chr19:5856544-5856708
Length
696 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGC
5' ss Score
8.15
3' ss Seq
GGCATTATCTGATCACCCAGCTG
3' ss Score
2.63
Exon sequences
Seq C1 exon
GAGTTGCAGAGTGGCACCTCTAATTCAGTGTGATTATTGCCCACTCCTGTTCCACATGGATTGTCTGGAGCCACCTCTTACTGCCATGCCTCTGGGTAGATGGATGTGCCCAAATCACATAGAACACGTGGTG
Seq A exon
GTAAGCAGGACTATGATTGCAGTATGGTAACCGGATGCTGGAATGGAACCTGGCAGGTCCATTAAAGGACAAAGTACAACACATGTAAAACAGCTTCTGAGCTCTTATTGCTCCCTGTAACGCTTGTAAAGCTCCTGCTGCAAGCAACGTGCTCTCCAAAGGAATATGATGCTGCTCTCTGCAATAAAATATAAAGATGGGGGAACTCCTTCCTGTAACTGAAGCCGACAGCTCAGAGTGTGACTCACTGGCAGTTTGTCTGGTTTTCAGACTGGACTCCTTAAGATCTAGATGAGCTTCCAGAACTGTGGTACAAAGCAGCACAGCGCTACAAATAGGGGAAGTCATTCTTTGCATGTTTAACCCAAAAAACTTTCATTCCACACGGGCGCTTTCATGTGTGGCAAAGCGTTGTGCTTGAGACTAAATACTCAGGAAACAGGGGGCTGGAACAAAGGGCTTGTGCCCAGAGAAACTGCTTCTGAGAGCACTGATGCTACTTAGTAGGCCTCTGAGTGCTTTTGTATTCACCTCCAGCAATGTGCCCTTTAACAGAAACGGTTAGTGCTGCAGGAAGCAAATAGCATAAAGCAGAGCTGATGCTGTACTGCCAGTGCTGCGAGGCGTTATGACATTCTTAGGGTGCCTTAGTGCCCTGCAGATCCCTAACTACTGTGGCATTATCTGATCACCCAG
Seq C2 exon
CTGAACCAGAAGAACTTGACCCTGAGTAATCGGTGCCGAGTATTTGACCGGTTCCAGGACACCATATCTCAGCACGTTGTCAAAGTGGATTTCTTAAACCGAATCCATAAGAAACATCCTCCGAATCGCAGAGTTCTTCAGTCAGTGAAGAGAAAGGGTTTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004029:ENSGALT00000006417:6
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=0.055
Domain overlap (PFAM):
C1:
PF0013017=C1_1=PD(71.8=62.2),PF0062824=PHD=PD(84.8=86.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTTGCAGAGTGGCACCTCTA
R:
CAAACCCTTTCTCTTCACTGACTGA
Band lengths:
294-990
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]