GgaINT0030404 @ galGal3
Intron Retention
Gene
ENSGALG00000001362 | Q5F445_CHICK
Description
NA
Coordinates
chr10:1858198-1858627:-
Coord C1 exon
chr10:1858534-1858627
Coord A exon
chr10:1858265-1858533
Coord C2 exon
chr10:1858198-1858264
Length
269 bp
Sequences
Splice sites
5' ss Seq
GATGTACAG
5' ss Score
-3.25
3' ss Seq
GCTCCTGTTTTCTCTCCTAGATG
3' ss Score
10.56
Exon sequences
Seq C1 exon
AGAAGCCAACAGAGCAGTAAGCGCAGCAGGAGCGTGGAAGATGACAAGGAAGGCCACCTGGTGTGCAGGATCGGCGATTGGCTTCAAGAGCGAT
Seq A exon
GTACAGCCACCTTTCGTAAAACTTTACCTCTACTTTCTATCCCCGTGTTAGACGAGATCTCTCTTATTGTACTGGAGGGGTCTCCTAGTGTTTATTGCTTATAAATGGACTGACCAGTAAATTACCTGAGGCAGACAATAGCCACTTGAGTTTTAAAGAGCGTAGCAGCGAGAGACGTTTTTGCTTTGACGCTTTATTGCTGTGAATTGCAGGAGCTCAGCTCTCGCCACTCCCCTCAAGTTCACATCTGCTCCTGTTTTCTCTCCTAG
Seq C2 exon
ATGAAATTGTCGGCAGCCTTGGCGAAGGCACTTTTGGCAAAGTGGTGGAGTGTGTAGACCACGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001362:ENSGALT00000002079:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.406 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PU(0.1=0.0)
A:
NA
C2:
PF0006920=Pkinase=PU(6.9=95.7)
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:
AGAAGCCAACAGAGCAGTAAGC
R:
CACACTCCACCACTTTGCCAA
Band lengths:
148-417
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]