RnoINT0015051 @ rn6
Intron Retention
Gene
ENSRNOG00000000439 | Ager
Description
advanced glycosylation end product-specific receptor [Source:RGD Symbol;Acc:69258]
Coordinates
chr20:4363152-4363564:+
Coord C1 exon
chr20:4363152-4363256
Coord A exon
chr20:4363257-4363457
Coord C2 exon
chr20:4363458-4363564
Length
201 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGC
5' ss Score
5.97
3' ss Seq
ACAATGATGTTACCACCCAGGAG
3' ss Score
4.68
Exon sequences
Seq C1 exon
AGCCACAGTAGGAAGTGGGGCAGACAGAACCAGGAGCCTGGGAAGGAAGCACCATGCCAACGGGGACAGTAGCTAGAGCCTGGGTACTGGTTCTTGCTCTGTGGG
Seq A exon
GTGAGCTATTCCCAACCCCACCAACTCTCCCCATCAGCTGCCCTGCTCCCATCCCCCCAGGACCTCTTCTCCCTAGAAATACCCCCTCCTGCCCCTGAGACTGGGCACCACTTCCCAAAAACCCAAACCTACCCTGCCCTACACCCACCAGCCCTGCCTCTCTCTCCCCTTCCACCCTTCTACAATGATGTTACCACCCAG
Seq C2 exon
GAGCCGTAGCTGGTGGTCAGAACATCACAGCCCGGATCGGAGAGCCACTTATGCTGAGCTGTAAGGGGGCCCCTAAGAAGCCAACCCAGAAGCTAGAATGGAAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000439:ENSRNOT00000000508:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.277
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF138951=Ig_2=PU(34.0=91.7)
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:
CACAGTAGGAAGTGGGGCAGA
R:
TCCATTCTAGCTTCTGGGTTGG
Band lengths:
204-405
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]