RnoINT0015054 @ rn6
Intron Retention
Gene
ENSRNOG00000000439 | Ager
Description
advanced glycosylation end product-specific receptor [Source:RGD Symbol;Acc:69258]
Coordinates
chr20:4363712-4364142:+
Coord C1 exon
chr20:4363712-4363904
Coord A exon
chr20:4363905-4364077
Coord C2 exon
chr20:4364078-4364142
Length
173 bp
Sequences
Splice sites
5' ss Seq
ACCGTAAGG
5' ss Score
6.08
3' ss Seq
TGACTGAATTTTCCCTCTAGAGA
3' ss Score
8.57
Exon sequences
Seq C1 exon
AACACAGGAAGGACTGAAGCTTGGAAGGTCCTCTCTCCCCAGGGAGACCCCTGGGACAGTGTGGCTCGAATCCTCCCCAATGGTTCACTCCTCCTTCCAGCTATCGGAATTGTCGATGAGGGGACTTTCCGGTGTCGGGCAACTAACAGGCTTGGGAAGGAGGTCAAGTCCAACTACCGAGTCCGAGTCTACC
Seq A exon
GTAAGGGTTCCAGGCCGTGGCTAAGTCACTTTGCATTTAACAAAAAGCCTTCATTTACAACCCCCCAACCCCCACCCTTGACTCTTAGCCCTGGTGTGTCTGGACCTCTGATCTCCACGGCCCTTCCTCCCATGCCTGGAGTGTGAGAAATTATGACTGAATTTTCCCTCTAG
Seq C2 exon
AGATTCCTGGGAAGCCGGAAATTGTGAATCCTGCCTCTGAACTCACAGCCAATGTCCCTAATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000439:ENSRNOT00000000508:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.022 A=NA C2=0.401
Domain overlap (PFAM):
C1:
PF138951=Ig_2=PD(63.9=95.4)
A:
NA
C2:
PF082057=C2-set_2=PU(16.8=72.7)
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:
GGACTGAAGCTTGGAAGGTCC
R:
AGGGACATTGGCTGTGAGTTC
Band lengths:
242-415
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]