RnoINT0015058 @ rn6
Intron Retention
Gene
ENSRNOG00000000439 | Ager
Description
advanced glycosylation end product-specific receptor [Source:RGD Symbol;Acc:69258]
Coordinates
chr20:4364713-4365152:+
Coord C1 exon
chr20:4364713-4364843
Coord A exon
chr20:4364844-4365010
Coord C2 exon
chr20:4365011-4365152
Length
167 bp
Sequences
Splice sites
5' ss Seq
GATGTGAGT
5' ss Score
7.77
3' ss Seq
CCCCTGCCCCTTTCCATCAGGGC
3' ss Score
10.53
Exon sequences
Seq C1 exon
AGCCCCTGCCTCCAGAGGGCATTCAGCTGTTGGTTGAGCCTGAAGGTGGAACAGTCGCTCCTGGTGGGACCGTGACCCTGACCTGTGCCATCTCTGCCCAGCCTCCCCCTCAAATCCACTGGATAAAAGAT
Seq A exon
GTGAGTGACCTGAAGGCCTGAGGGCTGGGAACGACAGGCAGAGGGCTGATGCAGGGAAGGTGGCCTAAGAACTGCGTGGGCTGGGAGACAGAATGTTTGGCCGTGGAAATGAAGAGTCCGGGATGTGTGCACAGGGTTTCTAACAGCCCCCTGCCCCTTTCCATCAG
Seq C2 exon
GGCACACCCCTGCCCCTTGCCCCCAGCCCTGTGCTGCTCCTCCCTGAGGTAGGGCATGAGGATGAGGGCATCTACAGCTGCGTGGCCACCCACCCTAGCCATGGACCTCAGGAAAGCCCTCCTGTCAACATCAGGGTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000439:ENSRNOT00000000508:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.610 A=NA C2=0.652
Domain overlap (PFAM):
C1:
PF138951=Ig_2=PU(43.4=81.8)
A:
NA
C2:
PF138951=Ig_2=PD(54.2=93.8),PF0240410=SCF=PU(13.5=25.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
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:
GAGGGCATTCAGCTGTTGGTT
R:
ATGTTGACAGGAGGGCTTTCC
Band lengths:
248-415
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]