GgaINT0126420 @ galGal3
Intron Retention
Gene
ENSGALG00000004565 | PHYHD1
Description
NA
Coordinates
chr17:5951842-5952138:+
Coord C1 exon
chr17:5951842-5951897
Coord A exon
chr17:5951898-5952075
Coord C2 exon
chr17:5952076-5952138
Length
178 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
TGTGGAAAGTTTCTTTCCAGGAG
3' ss Score
3
Exon sequences
Seq C1 exon
CCTTGCACGCTCACGATCCTGTCTTCAAGCAGATCACTCACTCCTCCAAGGTGCAG
Seq A exon
GTAAGCTGAGCCGATAGAGCTGTCTGACAGAAAGCTAAATGATGGGATGGTCAGCTTGAGTATTCTAGACTCCTAAGTACAACGTTTTTGAACATAAAAGGACAGGATACCCACAGAAAATAGCGCTTTGTGGTGTGCAGAAAGCAGCAAACGTGAACTGTGGAAAGTTTCTTTCCAG
Seq C2 exon
GAGCTGGGGAGAAAACTGGGTCTGGAGAGACCAGTGGTTGTGCAGAGCATGTACATCTTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004565:ENSGALT00000007266:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF057218=PhyH=FE(7.3=100)
A:
NA
C2:
PF057218=PhyH=FE(8.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACGCTCACGATCCTGTCTTC
R:
CTTGAAGATGTACATGCTCTGCAC
Band lengths:
114-292
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]