Variant report

Variant	rs555060
Chromosome Location	chr1:175838048-175838049
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs4652136	1.00[ASN][1000 genomes]
rs474868	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs506265	1.00[ASN][1000 genomes]
rs516855	1.00[ASN][1000 genomes]
rs551529	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs556946	1.00[ASN][1000 genomes]
rs72711123	0.94[EUR][1000 genomes]
rs72711125	0.94[EUR][1000 genomes]
rs72711126	0.94[EUR][1000 genomes]
rs72711127	0.94[EUR][1000 genomes]
rs72711128	0.94[EUR][1000 genomes]
rs72711131	0.94[EUR][1000 genomes]
rs72711143	0.94[EUR][1000 genomes]
rs72711146	0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv33328	chr1:175446583-175910001	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv872560	chr1:175648631-175869554	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv522255	chr1:175827683-175849898	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:175831600-175840000	Enhancers	Brain Hippocampus Middle	brain
2	chr1:175831600-175842000	Enhancers	Brain Inferior Temporal Lobe	brain
3	chr1:175834600-175839000	Enhancers	Brain Germinal Matrix	brain
4	chr1:175835000-175841600	Weak transcription	Fetal Lung	lung
5	chr1:175835600-175840200	Weak transcription	Fetal Heart	heart
6	chr1:175835600-175848200	Weak transcription	Aorta	Aorta
7	chr1:175836000-175839600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr1:175836000-175841800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr1:175836000-175845400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr1:175836200-175838400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr1:175836200-175838600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr1:175837400-175839800	Enhancers	Brain Anterior Caudate	brain
13	chr1:175837400-175843200	Enhancers	Brain Substantia Nigra	brain
14	chr1:175837800-175838800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr1:175837800-175839000	Enhancers	Cortex derived primary cultured neurospheres	brain
16	chr1:175838000-175838200	Enhancers	HUES64 Cell Line	embryonic stem cell
17	chr1:175838000-175838200	Enhancers	iPS-18 Cell Line	embryonic stem cell
18	chr1:175838000-175841600	Enhancers	Brain Cingulate Gyrus	brain
19	chr1:175838000-175842000	Enhancers	Brain Angular Gyrus	brain

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

what's new

Quick links