Variant report

Variant	rs584860
Chromosome Location	chr13:54770265-54770266
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs2576139	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2576140	1.00[EUR][1000 genomes]
rs2782516	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2818221	0.98[EUR][1000 genomes]
rs490751	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs493274	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs496180	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs505155	1.00[EUR][1000 genomes]
rs524486	0.95[EUR][1000 genomes]
rs525758	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs556714	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs568227	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs572761	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs586049	0.91[EUR][1000 genomes]
rs593897	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs596327	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs625472	0.98[EUR][1000 genomes]
rs631641	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs635395	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs651356	0.95[EUR][1000 genomes]
rs662226	1.00[EUR][1000 genomes]
rs679177	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs795636	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs795659	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9536647	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3375545	chr13:54517432-54908108	Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
2	nsv561701	chr13:54711276-54826104	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:54767800-54770600	Enhancers	iPS-15b Cell Line	embryonic stem cell
2	chr13:54768000-54770600	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr13:54768600-54773000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr13:54768800-54770400	Enhancers	iPS-20b Cell Line	embryonic stem cell
5	chr13:54768800-54770400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr13:54768800-54770600	Enhancers	HUES48 Cell Line	embryonic stem cell
7	chr13:54769000-54770600	Enhancers	ES-I3 Cell Line	embryonic stem cell
8	chr13:54769000-54773000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr13:54769000-54774000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr13:54769000-54774400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr13:54769600-54770400	Enhancers	H9 Cell Line	embryonic stem cell
12	chr13:54769800-54770600	Enhancers	HUES6 Cell Line	embryonic stem cell
13	chr13:54769800-54772800	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr13:54769800-54773200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr13:54770200-54770400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr13:54770200-54773200	Weak transcription	H1 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links