HsaALTD0000196-2/2 @ hg38
Alternative 5'ss
Gene
ENSG00000204305 | AGER
Description
advanced glycosylation end-product specific receptor [Source:HGNC Symbol;Acc:HGNC:320]
Coordinates
chr6:32180968-32181632:-
Coord C1 exon
chr6:32181606-32181632
Coord A exon
chr6:32181524-32181605
Coord C2 exon
chr6:32180968-32181239
Length
82 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
CCCCCAATCTTTCTCCTCAGGAA
3' ss Score
11.45
Exon sequences
Seq C1 exon
AACCAGGCGAGGAGGGGCCAACTGCAG
Seq A exon
GTGAGGGGTTTGATAAAGTCAGGGAAGCAGAAGATAGCCCCCAACACATGTGACTGGGGGGATGGTCAACAAGAAAGGAATG
Seq C2 exon
GAAGGCCCCAGAAAACCAGGAGGAAGAGGAGGAGCGTGCAGAACTGAATCAGTCGGAGGAACCTGAGGCAGGCGAGAGTAGTACTGGAGGGCCTTGAGGGGCCCACAGACAGATCCCATCCATCAGCTCCCTTTTCTTTTTCCCTTGAACTGTTCTGGCCTCAGACCAACTCTCTCCTGTATAATCTCTCTCCTGTATAACCCCACCTTGCCAAGCTTTCTTCTACAACCAGAGCCCCCCACAATGATGATTAAACACCTGACACATCTTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204305-19-21,20-21-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.989 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF066977=DUF1191=FE(8.0=100)
A:
NA
C2:
PF066977=DUF1191=PD(28.2=87.9)
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
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:
GAGGAGGGGCCAACTGCAG
R:
GAGGCCAGAACAGTTCAAGGG
Band lengths:
181-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Autistic and control brains
- Pre-implantation embryo development