HsaINT1003169 @ hg38
Intron Retention
Gene
ENSG00000204305 | AGER
Description
advanced glycosylation end-product specific receptor [Source:HGNC Symbol;Acc:HGNC:320]
Coordinates
chr6:32183881-32184324:-
Coord C1 exon
chr6:32184171-32184324
Coord A exon
chr6:32183988-32184170
Coord C2 exon
chr6:32183881-32183987
Length
183 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGC
5' ss Score
5.97
3' ss Seq
ACCATGGTGCTATCTCCCAGGGG
3' ss Score
7.23
Exon sequences
Seq C1 exon
GACTGAAAGATGGGGGCTGGAGAGAGGGTGCAGGCCCCACCTAGGGCGGAGGCCACAGCAGGGAGAGGGGCAGACAGAGCCAGGACCCTGGAAGGAAGCAGGATGGCTGCCGGAACAGCAGTTGGAGCCTGGGTGCTGGTCCTCAGTCTGTGGG
Seq A exon
GTGAGCCACTCCCTCAACCCCACTGACCCTCCCTGCAGAAAGCACTTTAACCCCACACCCCAGTCGTCCTAGAACTTTTCCCAGAACCCGAGGAAGTGCCTTTCAAGGTCCCTCACCCACCCTGTCCAAATTTTGTTAGCCCTCATTCCCTTCCTACCCCTCTACCATGGTGCTATCTCCCAG
Seq C2 exon
GGGCAGTAGTAGGTGCTCAAAACATCACAGCCCGGATTGGCGAGCCACTGGTGCTGAAGTGTAAGGGGGCCCCCAAGAAACCACCCCAGCGGCTGGAATGGAAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204305:ENST00000375076:1
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=0.167
Domain overlap (PFAM):
C1:
PF138951=Ig_2=PU(0.1=0.0)
A:
NA
C2:
PF138951=Ig_2=PU(35.0=97.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
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:
GAAAGATGGGGGCTGGAGAGA
R:
AGTTTCCATTCCAGCCGCTG
Band lengths:
256-439
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains