GgaINT0138230 @ galGal3
Intron Retention
Gene
ENSGALG00000007406 | F1N9M8_CHICK
Description
NA
Coordinates
chr24:5557401-5557936:+
Coord C1 exon
chr24:5557401-5557441
Coord A exon
chr24:5557442-5557776
Coord C2 exon
chr24:5557777-5557936
Length
335 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGT
5' ss Score
9.09
3' ss Seq
CTCTGCCATCCCCGCTGAAGGCT
3' ss Score
4.1
Exon sequences
Seq C1 exon
GAAGTGCCTCTCTGGATCGGTTGTTTCCCTCCTTTGTTCCA
Seq A exon
GTAAGTATGGGGTCACGTCCGTGCCTTATGGCACCCAGGGCTTCGTGCTGTTCCCGGCACAGCCCCGTGCGCACAGCTCTGGCCCTGGGTGGGTTCACTTCTGCTGACGAATTACTCTGATTAAACAAACCCCGCGGTGGGCTGGAGAGCAAAACACGGGGGTGAACAGATTCGGGCAAGCCTGGGGACGATGTGCAAACAGAGAACAAAAGGGGGTGTGCCGAGCGTGCCACTGAGGGGTGACACAGCGGCGTGGAGAGGGGTGAGGCCGGGGCAGCCTCCATCCCGGCGGTCCCTTCCTGAGCTCACATCCTGCTCTGCCATCCCCGCTGAAG
Seq C2 exon
GCTGCGGGGAGAGCGTGCGGACGCCGCGTGTGCTGGGCGGGCGGCCGGCGGCCATCGAGGCCTGGCCATGGCAGGTCAGCCTGCGTTACCGCGGGGAGCACATCTGCGGCGGCAGCATCATCGATCCCCTCTGGATCCTCACTGCCGCGCACTGCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007406:ENSGALT00000011978:5
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:
PF154941=SRCR_2=FE(15.1=100)
A:
NA
C2:
PF154941=SRCR_2=PD(5.4=9.3),PF0008921=Trypsin=PU(19.3=79.6)
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:
GAAGTGCCTCTCTGGATCGGT
R:
CGCGGCAGTGAGGATCCA
Band lengths:
190-525
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]