RnoINT0015056 @ rn6
Intron Retention
Gene
ENSRNOG00000000439 | Ager
Description
advanced glycosylation end product-specific receptor [Source:RGD Symbol;Acc:69258]
Coordinates
chr20:4364244-4364602:+
Coord C1 exon
chr20:4364244-4364331
Coord A exon
chr20:4364332-4364422
Coord C2 exon
chr20:4364423-4364602
Length
91 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TCTCATCATACGCACTACAGGGA
3' ss Score
4.84
Exon sequences
Seq C1 exon
GTGGGGACGTGTGTGTCTGAGGGGAGCTACCCTGCAGGGACCCTTAGCTGGCACTTGGATGGGAAACCTCTGATTCCTGATGGCAAAG
Seq A exon
GTGAGTGCCAGGGTGCCCCACACCCAACCACCTTCTTCCTGATGGCCCTCCATACCGCTCTGGGTGTCTGATCTCATCATACGCACTACAG
Seq C2 exon
GGACAGTTGTGAAGGAGGAGACCAGGAGGCACCCTGAGACGGGACTCTTCACGCTTCGGTCAGAGCTCACAGTGACCCCAGCCCAAGGAGGGACCACTCCTACCTATTCCTGCAGCTTCAGCCTGGGCCTTCCTCGGCACAGACCCCTGAACACAGCCCCCATCCAGCCCCGAGTCAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000439:ENSRNOT00000000508:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.267 A=NA C2=0.770
Domain overlap (PFAM):
C1:
PF082057=C2-set_2=FE(30.5=100)
A:
NA
C2:
PF082057=C2-set_2=PD(50.5=78.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTAGCTGGCACTTGGATGGG
R:
GGCTGAAGCTGCAGGAATAGG
Band lengths:
169-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]