RnoINT0015057 @ rn6
Intron Retention
Gene
ENSRNOG00000000439 | Ager
Description
advanced glycosylation end product-specific receptor [Source:RGD Symbol;Acc:69258]
Coordinates
chr20:4364423-4364843:+
Coord C1 exon
chr20:4364423-4364602
Coord A exon
chr20:4364603-4364712
Coord C2 exon
chr20:4364713-4364843
Length
110 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGT
5' ss Score
7.93
3' ss Seq
TCATGCCCATGCCCACCCAGAGC
3' ss Score
5.6
Exon sequences
Seq C1 exon
GGACAGTTGTGAAGGAGGAGACCAGGAGGCACCCTGAGACGGGACTCTTCACGCTTCGGTCAGAGCTCACAGTGACCCCAGCCCAAGGAGGGACCACTCCTACCTATTCCTGCAGCTTCAGCCTGGGCCTTCCTCGGCACAGACCCCTGAACACAGCCCCCATCCAGCCCCGAGTCAGGG
Seq A exon
GTGAGTAGGGAGGAAGGGCCCAGTCTGGCTCTCAGGGAGACGGGTCAATGCCAGGGTCATCAGGCTGGCTGCCAGGTGTCCTGATGGACCTCATGCCCATGCCCACCCAG
Seq C2 exon
AGCCCCTGCCTCCAGAGGGCATTCAGCTGTTGGTTGAGCCTGAAGGTGGAACAGTCGCTCCTGGTGGGACCGTGACCCTGACCTGTGCCATCTCTGCCCAGCCTCCCCCTCAAATCCACTGGATAAAAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000439:ENSRNOT00000000508:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.770 A=NA C2=0.610
Domain overlap (PFAM):
C1:
PF082057=C2-set_2=PD(50.5=78.7)
A:
NA
C2:
PF138951=Ig_2=PU(43.4=81.8)
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:
TTCGGTCAGAGCTCACAGTGA
R:
TCCAGTGGATTTGAGGGGGAG
Band lengths:
249-359
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]