GgaINT0039200 @ galGal3
Intron Retention
Gene
ENSGALG00000005069 | PGH2_CHICK
Description
NA
Coordinates
chr8:10060248-10060615:+
Coord C1 exon
chr8:10060248-10060364
Coord A exon
chr8:10060365-10060471
Coord C2 exon
chr8:10060472-10060615
Length
107 bp
Sequences
Splice sites
5' ss Seq
CACGTAAGT
5' ss Score
10.16
3' ss Seq
CTTTCCATCTTTGCTCACAGCGG
3' ss Score
9.89
Exon sequences
Seq C1 exon
CCAACCCTTGCTGCTCCCTCCCATGTCAGAACAGAGGTGTATGCATGACAACAGGATTTGATCGGTATGAATGTGACTGCACGAGGACGGGCTATTATGGGGAAAACTGTACAACAC
Seq A exon
GTAAGTACCTCTGATGTCTTTGCGTCGAAATGGAGTCTGAGAACTCAATTACAGAATTGCAGGTTATTTTCAATAGCAACATACAATCTTTCCATCTTTGCTCACAG
Seq C2 exon
CGGAATTCTTCACGTGGCTGAAACTAATATTGAAACCTACACCAAATACTGTCCACTACATTCTCACCCACTTCAAAGGAGTCTGGAACATCATCAACAACATTTCCTTCTTACGAGATACTATTATGAGATACGTGTTGACGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005069:ENSGALT00000008125:2
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:
PF0000822=EGF=WD(100=82.5)
A:
NA
C2:
NO
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:
CTGCTCCCTCCCATGTCAGAA
R:
ACACGTATCTCATAATAGTATCTCGT
Band lengths:
245-352
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]