GgaINT0039204 @ galGal3
Intron Retention
Gene
ENSGALG00000005069 | PGH2_CHICK
Description
NA
Coordinates
chr8:10062622-10063129:+
Coord C1 exon
chr8:10062622-10062705
Coord A exon
chr8:10062706-10062882
Coord C2 exon
chr8:10062883-10063129
Length
177 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGT
5' ss Score
10.65
3' ss Seq
CGGTGCCCCTTCCCTGGCAGATG
3' ss Score
10.77
Exon sequences
Seq C1 exon
GTTGACTTGAACCACATTTATGGAGAGACTCTGGAGAGGCAACTTAAATTGAGACTTCGCAAGGATGGAAAACTAAAGTACCAG
Seq A exon
GTACGTCTTATCTTAATTGCTGCCTTTTTATTGGATGACACGTTTCTTAAAATTAGCTCTCTGTTCACAGCATTGCTCGCCTGAAGTTGGTGTTACTAGAGTCAATGCAGTGTAAAGCATCTTAGCTTATAATTCTCTTGTTCTCTCTCACTTTCTCCGGTGCCCCTTCCCTGGCAG
Seq C2 exon
ATGATTGATGGAGAAATGTATCCACCAACAGTGAAGGACACTCAAGCAGAGATGATCTACCCTCCTCATGTTCCTGAGCATCTGCAGTTTTCTGTTGGGCAGGAGGTGTTTGGCTTGGTCCCAGGCCTAATGATGTATGCAACGATATGGCTGAGAGAACACAATAGAGTCTGTGACGTCTTGAAACAGGAGCATCCAGAGTGGGATGATGAGCAGCTATTTCAGACTACAAGACTCATATTGATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005069:ENSGALT00000008125:6
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=0.000
Domain overlap (PFAM):
C1:
PF0309810=An_peroxidase=FE(7.4=100)
A:
NA
C2:
PF0309810=An_peroxidase=FE(22.5=100)
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:
TGAGACTTCGCAAGGATGGAA
R:
AGCTGCTCATCATCCCACTCT
Band lengths:
253-430
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]