RnoINT0015053 @ rn6
Intron Retention
Gene
ENSRNOG00000000439 | Ager
Description
advanced glycosylation end product-specific receptor [Source:RGD Symbol;Acc:69258]
Coordinates
chr20:4363458-4363904:+
Coord C1 exon
chr20:4363458-4363564
Coord A exon
chr20:4363565-4363711
Coord C2 exon
chr20:4363712-4363904
Length
147 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGC
5' ss Score
8.69
3' ss Seq
GGTTTTTCTCTTCTTTGCAGAAC
3' ss Score
10.49
Exon sequences
Seq C1 exon
GAGCCGTAGCTGGTGGTCAGAACATCACAGCCCGGATCGGAGAGCCACTTATGCTGAGCTGTAAGGGGGCCCCTAAGAAGCCAACCCAGAAGCTAGAATGGAAACTG
Seq A exon
GTAAGCAGGACCCCACCCACCCACACACACACCTGGCCACACACCTGGCCACCAAAAGCCCTCCTCGAGGGTCCCCAGCACCCGGCCCTGACTAAGCAGTTCTTCCCCAGAGGGCCCAGTCCGCTTAGGTTTTTCTCTTCTTTGCAG
Seq C2 exon
AACACAGGAAGGACTGAAGCTTGGAAGGTCCTCTCTCCCCAGGGAGACCCCTGGGACAGTGTGGCTCGAATCCTCCCCAATGGTTCACTCCTCCTTCCAGCTATCGGAATTGTCGATGAGGGGACTTTCCGGTGTCGGGCAACTAACAGGCTTGGGAAGGAGGTCAAGTCCAACTACCGAGTCCGAGTCTACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000439:ENSRNOT00000000508:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.277 A=NA C2=0.022
Domain overlap (PFAM):
C1:
PF138951=Ig_2=PU(34.0=91.7)
A:
NA
C2:
PF138951=Ig_2=PD(63.9=95.4)
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:
TCGGAGAGCCACTTATGCTGA
R:
CTCGGACTCGGTAGTTGGACT
Band lengths:
258-405
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]