GgaINT0132393 @ galGal3
Intron Retention
Gene
ENSGALG00000004029 | PHF12
Description
NA
Coordinates
chr19:5857405-5858606:-
Coord C1 exon
chr19:5858486-5858606
Coord A exon
chr19:5857538-5858485
Coord C2 exon
chr19:5857405-5857537
Length
948 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCT
5' ss Score
8.16
3' ss Seq
ATGTGGCTCTCTCGTTGCAGGAG
3' ss Score
10.3
Exon sequences
Seq C1 exon
GTACTAGCAAGAGGAGGAGAAAGGAAGAAACCACAGGAAAGAACGTCAAGAAAGCACAACACGAGTTAGACCACAATGGTTTGGTTCCCTTGCCGGTCAAAGTCTGCTTCACATGCAACAG
Seq A exon
GTACCTAACTCTTCCAGGGAAGCTGTTTGGTGTAACTGCACCCTTCATGGGAGCAAAGGTCTTCCTGGAAAAAAAAAAAAGTGACCAACCTCTTATCTTCCCATTTTCCTTCTTGACTTTCTTACGATCTTCTATGCAAATAAGGGAATAATAACCTTTGCTAAATAGCAGGTGCTTAACGACAAGTGTAGCCATGGCTTCTGCATTATTGCATGGCTGTAAAGGTTTTAAAGTGTAGCCTGAAGAGATTGAGCCATCTTGCCTTCTCTATTTTTCTACTTAGAAAAAAATCTAAAGCGATGGTGGTTTGGAAAGCGGAGATGTTTGTTTATGGTTCATAAAGAAAGGATGTGAAGAGGTGACCTTTAGGAAATAGAAATATACAGAGCGAGCTATAAGCCCAAGGCAAACAGGAGTATTGTGCTGCAATGGTAAATCTTAAAACTAGTTTAAAGTACTGCTGTGTTTATGACTGCAGAAAAAAACACACAGATATATCCCTACACAAAATGTCAGCGGAACCAAAAAAGTACTTTAGGAACCCAGTCAGAGTGAGTTTTCTGGAAAAAAAATGTAATAGCCTGAGATTTCCTTCTGATCTTTTAAGTCTTGCTCTAAACAAAGCCACTTATAACCACTGCATAAGATCAGCTTGAGAAGTTGCATACGTGAATCTGGACAGGTGCTTGCTGCTTTCCAGCACCAGCATCTCCTGCCAAAGGACCAAGAAACCCTCGTTTGGGCAAGTCCTTTCACCTCGAGTGGGTCTTGCAGAATGTCCATACAGATCAAGTTACAAACCTGAAGCTTAATTTTAGATGCAAGTAACGTAGCATGTGGGATTTGGTGGGGAAAGATAAGCTGATGTGGTTAGCCAAGCTTGCCCTGCACGTTCACTTTATACTCTCAGTTCTGCATGGGAAATGAGATGTGGCTCTCTCGTTGCAG
Seq C2 exon
GAGTTGCAGAGTGGCACCTCTAATTCAGTGTGATTATTGCCCACTCCTGTTCCACATGGATTGTCTGGAGCCACCTCTTACTGCCATGCCTCTGGGTAGATGGATGTGCCCAAATCACATAGAACACGTGGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004029:ENSGALT00000006417:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.537 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0013017=C1_1=PU(25.6=24.4),PF0062824=PHD=PU(13.0=14.6)
A:
NA
C2:
PF0013017=C1_1=PD(71.8=62.2),PF0062824=PHD=PD(84.8=86.7)
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:
ACTAGCAAGAGGAGGAGAAAGGA
R:
ACGTGTTCTATGTGATTTGGGCA
Band lengths:
248-1196
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]