GgaINT0128381 @ galGal3
Intron Retention
Gene
ENSGALG00000023800 | Q90900_CHICK
Description
NA
Coordinates
chr18:487721-488287:-
Coord C1 exon
chr18:488191-488287
Coord A exon
chr18:488111-488190
Coord C2 exon
chr18:487721-488110
Length
80 bp
Sequences
Splice sites
5' ss Seq
AGTGTCTGG
5' ss Score
-10.48
3' ss Seq
GGGTCCCTGCTGTTCCCCAGGCC
3' ss Score
7
Exon sequences
Seq C1 exon
GAAAGACTTTGAAATCAGCCAGATCCAGAGCAAAATTGAGGATGAGCAAGCCCTGGGCATGCAGTTACAGAAGAAGATCAAGGAGCTGCAGGCAAGT
Seq A exon
GTCTGGTCCTTCCCTTCTGCCCTTCAGAAAACATCAGTTTGAGGAGGGCATGAGTATGAAGGGTCCCTGCTGTTCCCCAG
Seq C2 exon
GCCCGTATTGAGGAACTGGAGGAGGAAATCGAGGCAGAGCGAACCTCTCGGGCAAAAGCAGAGAAGCACCGAGCTGACCTCTCCAGGGAGCTGGAGGAGATCAGTGAGCGCCTGGAGGAAGCAGGAGGGGCTACAGCAGCTCAGATTGATATGAACAAGAAGCGTGAGGCAGAATTTCAGAAGATGCGCCGTGACCTCGAAGAGGCCACGCTGCAGCACGAAGCCACGGCTGCTGCCCTGCGGAAGAAGCATGCGGACAGCACAGCGGAGCTTGGGGAGCAGATCGACAACCTGCAACGTGTCAAGCAGAAGCTGGAGAAGGAGAAGAGTGAGCTGAAGATGGAGATTGATGACTTGGCCAGCAACATGGAGTCTGTCTCCAAAGCTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023800:ENSGALT00000001427:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=0.962
Domain overlap (PFAM):
C1:
PF0003816=Filament=FE(11.2=100),PF0157614=Myosin_tail_1=FE(3.7=100)
A:
NA
C2:
PF0003816=Filament=FE(45.1=100),PF0157614=Myosin_tail_1=FE(15.0=100),PF045827=Reo_sigmaC=PU(31.5=35.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTGAGGATGAGCAAGCCCTG
R:
GCTCACTGATCTCCTCCAGCT
Band lengths:
172-252
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]