GgaINT0123453 @ galGal3
Intron Retention
Gene
ENSGALG00000024348 | F1NFX9_CHICK
Description
NA
Coordinates
chr16:280940-281394:-
Coord C1 exon
chr16:281122-281394
Coord A exon
chr16:281042-281121
Coord C2 exon
chr16:280940-281041
Length
80 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGC
5' ss Score
5.97
3' ss Seq
ACAACGGCTCTCTCCCCCAGAGC
3' ss Score
9.61
Exon sequences
Seq C1 exon
TGCAGCCCGAGGTGCGAGTGTGGGGGAAGGAGGCCGACGGGATCCTGACCTTGTCCTGCCACGCTCACGGCTTCTACCCGCGGCCCATCAGCATCAGCTGGATGAAGGACGGCATGGTCCGGGACCAGGAGACCCACTGGGGGGGCGTCGTGCCCAACAGCGATGGCACCTACCACACCTCGGCTGCCATTGATGTGCTGCCGGAGGATGGGGACAAGTACTGGTGCCGTGTGGAGCACGCCAGCCTGCCCCAGCCTGGTCTCTTCTCATGGG
Seq A exon
GTGAGCTGGCAGCGTGGGGCACGTGGGGTTGGGATTCGGGGGCTGCCCCTTCCTTTCCTGACAACGGCTCTCTCCCCCAG
Seq C2 exon
AGCCGCAGCCCAACCTGATCCCCATTGTGGCCGGGGCGGTCGTCGCCATCGTGGCTGTCATTGCTGCTGTCGTTGGATTGGTGGTGTGGAAGAGAAAGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000024348:ENSGALT00000022037:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.098 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0765410=C1-set=WD(100=87.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCATTGATGTGCTGCCGGAG
R:
CACACCACCAATCCAACGACA
Band lengths:
175-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]