GgaINT0022377 @ galGal3
Intron Retention
Gene
ENSGALG00000002521 | F1P543_CHICK
Description
NA
Coordinates
chr12:2267724-2268051:-
Coord C1 exon
chr12:2267987-2268051
Coord A exon
chr12:2267902-2267986
Coord C2 exon
chr12:2267724-2267901
Length
85 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGT
5' ss Score
7.93
3' ss Seq
GGTAGCACCTGGCTTTGCAGGGA
3' ss Score
3.51
Exon sequences
Seq C1 exon
TGGGCTCGTGATGAGTTCGAGGGACTCTTCCAGTTGCCTGCAGAGAGCGTGAACCGCTTCCTGGG
Seq A exon
GTGAGTACAGACTCGGGAGCAGGGCCAGGCTCAAGGGACAGATGTGGCAGTGCTGCAGGGGTGCTGGTAGCACCTGGCTTTGCAG
Seq C2 exon
GGAGCTGCCCGAGGAGCTGCCGCGGTGGGAAGGGCTGGTGGTGCCCGAGCAGGTGCGGAGGAGCCTGCAGGAGCGGCCGCGGGACTGGGGGGACTGCGTGCGCTGGGCCCGCCGGCACTGGCAGCTCCGCTACCACAACAGCATCGCGCAGCTGCTGCACGACGTGCCGCCCTCGCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002521:ENSGALT00000003973:13
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=0.033
Domain overlap (PFAM):
C1:
PF105854=UBA_e1_thiolCys=PD(24.4=45.5)
A:
NA
C2:
NO
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:
CTTCCAGTTGCCTGCAGAGAG
R:
ATGCTGTTGTGGTAGCGGAG
Band lengths:
183-268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]