HsaINT1003170 @ hg38
Intron Retention
Gene
ENSG00000204305 | AGER
Description
advanced glycosylation end-product specific receptor [Source:HGNC Symbol;Acc:HGNC:320]
Coordinates
chr6:32180968-32181477:-
Coord C1 exon
chr6:32181351-32181477
Coord A exon
chr6:32181240-32181350
Coord C2 exon
chr6:32180968-32181239
Length
111 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
CCCCCAATCTTTCTCCTCAGGAA
3' ss Score
11.45
Exon sequences
Seq C1 exon
GCTCTGTGGGAGGATCAGGGCTGGGAACTCTAGCCCTGGCCCTGGGGATCCTGGGAGGCCTGGGGACAGCCGCCCTGCTCATTGGGGTCATCTTGTGGCAAAGGCGGCAACGCCGAGGAGAGGAGAG
Seq A exon
GTGAGTGGAGAAAGCCAGACCCCTCAGACCTAGGGCTTCCAGGCAGCAAGCGAAGAGGGGTCGGGGGGTGGAACGACAACGTGCCGCATTCCCCCCAATCTTTCTCCTCAG
Seq C2 exon
GAAGGCCCCAGAAAACCAGGAGGAAGAGGAGGAGCGTGCAGAACTGAATCAGTCGGAGGAACCTGAGGCAGGCGAGAGTAGTACTGGAGGGCCTTGAGGGGCCCACAGACAGATCCCATCCATCAGCTCCCTTTTCTTTTTCCCTTGAACTGTTCTGGCCTCAGACCAACTCTCTCCTGTATAATCTCTCTCCTGTATAACCCCACCTTGCCAAGCTTTCTTCTACAACCAGAGCCCCCCACAATGATGATTAAACACCTGACACATCTTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204305:ENST00000375076:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.386 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF066977=DUF1191=FE(37.5=100)
A:
NA
C2:
PF066977=DUF1191=PD(28.2=87.9)
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:
GGATCAGGGCTGGGAACTCTA
R:
AAAGGGAGCTGATGGATGGGA
Band lengths:
250-361
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains