GgaINT0132398 @ galGal3
Intron Retention
Gene
ENSGALG00000004029 | PHF12
Description
NA
Coordinates
chr19:5850717-5852319:-
Coord C1 exon
chr19:5852197-5852319
Coord A exon
chr19:5850861-5852196
Coord C2 exon
chr19:5850717-5850860
Length
1336 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
3' ss Seq
TGCTTTTTGTTTGTTAACAGAGA
3' ss Score
8.54
Exon sequences
Seq C1 exon
ATGGTAAGGTCAGCCCCAGCACCTTATCCATAGGAAGCGCTTTAACTCTACCCTCATCGCTCACTTCAAACTCTGCAGCTATGTTGGACCTCACCAGTTCCCTGAAAGCGTTTATGGATGGCG
Seq A exon
GTGAGTATTTGGTTTCTCAGTCTCTGCTAGCACTGTGTGTTTGCTTCCTGGGCATTTTCTCTGCTTAAGGAAGTTCCACAGATAAGGAAGGGTTGCAGTCAGGTGAGGGAGGGGCAGGATATATATTACCTTAAACGTGTCACATATTTCCCTACTTGTAGCGTTGCCAAGGCAGCGAGGCCAATGGAGGGTTTCTGCCTGAAGCTTTTCTGAGGAACAATCAGAATGCTATTGCCTGGGCTTCCTTCCAGGTGGAATTCACATGCAGGAACCTGCAGCCCTGCCGTGTTGTGGTGCTAGCTGTGCTCCAGAGGTGTTCCCAACGTGCACAGAGCCCAGATCCTCCACACCTTGTAGCTGAGCAGTCACCGAGTCGTGATGCTTTACCAGCTCTGCTCATTTCCTGATTGATTCCTGCTTCTGTTGGTCTTCTCCTGGACCGGCGTCGTTTTTGTTTGCCTTTTGTTGCACTTGGCAAGAATTGCCATATCTTAGTGCAGTGACCTCAGGAGGAAGAGATTGCTAACCAGCAGTCATCCCTGGTACAGCGAGGCAGGCTGTTGCCAGTGCCTGTTTCTCAAATGGAGCCTTTCTGGCATTTCCACCTCTTTTCATGGGTGAATCCCAGCTGCTTAGCTCAGCCAGACCACCCCTCTGCCACCAGGAAAGGCTGTTGTGTCTCTGCTTCTTCTGCTTGCTGTTTTAACTGTTGCTGGTGCCAAGAAAACTTGGAAACAGGTTAGCCAGCCTGTTTTTGCTACCAGAAGGCAGCTCTCCGTAGGGCTTTACAACTAGAAATACTTCAAAGCTATCAGCAAAAGATCTGCTTTAGAGCTTGTTAATAATCCTGTCTGAATTACCTTGTTTTGGTTAATTGACCCTGCTGTGAAAGCATGTGACTCAGGAATGAGCATATAGCTGCTTCAGAGGTGGTTACTGCTGCAGTGCAAGGACTTTATGACTAGATAACGAAGCTTCAGGAGAAGGAGCCAACCCACTGCCCAAGGGGGCAATGTCTGCCCCCACAGCCTTATTGCTTCTGAGCTGAAACAGCAGATTTTCAACCTAGCAGTCCTTGTTGCCCTGAATTTCTGAGCCCTGAACTTCTGCTTGCTGCCTGCATTGCAGCCTTGCAGCCATAGCTGACACTCTCCACATACTGCTCACATGAGAAGTAAGAGACCACCTGTATGTGACGTTCTTCATGCTGCAGATGATGTTGATCCTTGCTGTTGAAGCAAATGGCAAGTCTGAAAGCAGGACTGTTAAATCCACTGCAGCTCAGATGGCACCTTTCCATGAATAACTTTACTAATTGCTTTTTGTTTGTTAACAG
Seq C2 exon
AGATTGAGATAAATATGCTGGATGAGCAGCTGATCAAGTTTCTGGCCTTGCAGAGAATACATCAGCTCTTTCCTTCCAAAGCTCAGTCTCTAGCAAGCAGTGTCAGTGCCCATCAGCAATCTCCTGTGGCAAACCACATTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004029:ENSGALT00000006417:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.214 A=NA C2=0.102
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGGTAAGGTCAGCCCCAGC
R:
GGTTTGCCACAGGAGATTGCT
Band lengths:
258-1594
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]