Variant report

Variant	rs16869648
Chromosome Location	chr6:33847345-33847346
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs16869660	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs58823120	0.92[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs58937462	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6457746	0.97[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs6918090	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs6926599	0.82[EUR][1000 genomes]
rs6930960	0.82[EUR][1000 genomes]
rs73416177	1.00[EUR][1000 genomes]
rs73416178	0.83[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs73418515	0.82[EUR][1000 genomes]
rs744686	1.00[CEU][hapmap];0.88[YRI][hapmap];0.81[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs744687	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs744688	0.88[YRI][hapmap];0.82[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs7748471	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs7748483	0.81[ASW][hapmap];1.00[CEU][hapmap];0.88[YRI][hapmap];0.81[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs7750485	0.96[EUR][1000 genomes]
rs7767294	0.83[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs7767496	0.83[AFR][1000 genomes];0.82[EUR][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	nsv1022403	chr6:33795671-33847345	Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv916210	chr6:33804111-34144062	Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	32 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs16869648	HLA-DPB1	cis	multi-tissue	Pritchard

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:33839000-33848800	Weak transcription	Spleen	Spleen
2	chr6:33840800-33848000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr6:33844200-33852600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr6:33845600-33848800	Enhancers	Fetal Thymus	thymus
5	chr6:33845800-33848600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr6:33846000-33848200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
7	chr6:33846200-33848200	Enhancers	Fetal Intestine Large	intestine
8	chr6:33846200-33848600	Enhancers	Fetal Intestine Small	intestine
9	chr6:33846400-33847600	Enhancers	Duodenum Mucosa	Duodenum
10	chr6:33846400-33849200	Enhancers	Rectal Mucosa Donor 31	rectum
11	chr6:33846600-33849200	Weak transcription	Pancreas	Pancrea
12	chr6:33846800-33848600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr6:33847200-33847400	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
14	chr6:33847200-33848200	Enhancers	Colonic Mucosa	Colon
15	chr6:33847200-33848600	Enhancers	HUES48 Cell Line	embryonic stem cell
16	chr6:33847200-33849200	Enhancers	iPS-20b Cell Line	embryonic stem cell
17	chr6:33847200-33852000	Weak transcription	Rectal Mucosa Donor 29	rectum

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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

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