GgaINT0123423 @ galGal3
Intron Retention
Gene
ENSGALG00000000141 | E2JF30_CHICK
Description
NA
Coordinates
chr16:69833-70417:+
Coord C1 exon
chr16:69833-69940
Coord A exon
chr16:69941-70147
Coord C2 exon
chr16:70148-70417
Length
207 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGC
5' ss Score
8.19
3' ss Seq
ACCGTGCCCTCTGCCCGCAGCGT
3' ss Score
12.72
Exon sequences
Seq C1 exon
GTCCGGCGGCAGCAGCCATGGGGAGCGGGCGCGTCCCGGCGGCGGGGGCCGTGCTGGTGGCACTGCTGGCGCTGGGAGCCCGGCCGGCCGCCGGCACGCGGCCCTCGG
Seq A exon
GTGAGCTAGGAGCCGCGGCGCGGGGACGGCGCTGCGTCCCCCCCGGAGAAACCCCCGGAGCCCTTCTGGCCGTGCGCAGCGCTCGGGGCTGCGGGGGGATGGAGGGCGGGGGGGGTGGCGGAGCCGTGGGGGGCAGGGGGGCCGGGGAGGGGTCGGGGGGTGTGGCGGGGGGCGGCTGTGTGCCCTGACCGTGCCCTCTGCCCGCAG
Seq C2 exon
CGTTCTTCCAGTGGACTTTTAAAGCAGAGTGCCACTACCTGAACGGCACCGAGCGGGTGAGGTATCTGGTCAGGTATGTCTACAACCGGCAGGAGTACGCGCACTTCGACAGCGACGTGGGGAAACACGTGGCCGATACACCGCTGGGTGAGCCGCAAGCTGAATACTGGAACAGCAACGCCGAGATTCTGGAGAACCGAATGAATGAAGTGGACACGTACTGCCGGCACAACTACGGGGTTGTGGAGTCCTTCACGGTGCAGAGGAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000141:ENSGALT00000000194:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.011
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0096914=MHC_II_beta=WD(100=82.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]