GgaINT0124444 @ galGal3
Intron Retention
Gene
ENSGALG00000002375 | Q9W737_CHICK
Description
NA
Coordinates
chr17:8519660-8520033:+
Coord C1 exon
chr17:8519660-8519779
Coord A exon
chr17:8519780-8519877
Coord C2 exon
chr17:8519878-8520033
Length
98 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
GTTCCCATCCCGCTGTCCCGCAG
3' ss Score
-4.8
Exon sequences
Seq C1 exon
GAGCCACCTGTGAGGACGTGCTGGCCCCCTGCGCCGGCGGCCCCTGCAAGAACGGCGGCGAGTGCCGGGAGTCAGAGGACTACAAGAGGTTCTCGTGCAGCTGCCCGCCCGGCTGGCAAG
Seq A exon
GTGAGCCTGCTCTGCGGGGTGGGCTTGGGGCGCAGTGACCAGCCCTGGTGCTTCTGCCAGTGCCCCCCGGCTCATGTGGTTCCCATCCCGCTGTCCCG
Seq C2 exon
CAGGCCAGACGTGTGAGATTGACATCAATGAGTGTGTGAAGAGCCCGTGCCGCAATGGGGCCACGTGTCAGAACACCAACGGGAGCTACCGCTGCCTGTGCCGGGTGGGCTTCGCGGGCCGCAACTGCGACACCGACATCGACGACTGCCAGCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002375:ENSGALT00000003754:15
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=PD(6.5=4.9),PF0000822=EGF=PU(93.8=73.2)
A:
NA
C2:
PF0000822=EGF=PD(3.1=1.9),PF0764510=EGF_CA=WD(100=71.7),PF0000822=EGF=PU(9.7=5.7)
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:
CAAGAGGTTCTCGTGCAGCTG
R:
CGATGTCGGTGTCGCAGTTG
Band lengths:
179-277
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]