Variant report

Variant	rs6456098
Chromosome Location	chr6:167036339-167036340
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:167035604..167038235-chr6:167040017..167042758,3	K562	blood:

Variant related genes	Relation type
ENSG00000071242	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10946178	0.94[CEU][hapmap]
rs10946179	0.89[EUR][1000 genomes]
rs12196315	0.82[EUR][1000 genomes]
rs12199983	0.94[CEU][hapmap]
rs12203904	0.94[CEU][hapmap];0.81[GIH][hapmap];0.85[EUR][1000 genomes]
rs12204787	0.94[CEU][hapmap];0.85[EUR][1000 genomes]
rs3778367	0.94[CEU][hapmap];0.85[EUR][1000 genomes]
rs3778369	0.94[CEU][hapmap];0.85[EUR][1000 genomes]
rs3778370	0.94[CEU][hapmap];0.85[EUR][1000 genomes]
rs3778371	0.85[EUR][1000 genomes]
rs3778372	0.88[ASW][hapmap];0.94[CEU][hapmap];0.89[CHB][hapmap];0.94[CHD][hapmap];0.85[GIH][hapmap];0.93[JPT][hapmap];0.85[LWK][hapmap];0.87[MKK][hapmap];0.82[YRI][hapmap];0.92[AFR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3778373	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs3778375	0.94[CEU][hapmap];0.85[EUR][1000 genomes]
rs3799566	1.00[CEU][hapmap];0.96[TSI][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3799570	0.89[CEU][hapmap];0.85[EUR][1000 genomes]
rs3799571	0.88[ASW][hapmap];0.94[CEU][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.86[MKK][hapmap];0.89[YRI][hapmap];0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs58727224	0.85[EUR][1000 genomes]
rs60145177	0.85[EUR][1000 genomes]
rs6456097	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6927052	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs72503823	0.85[EUR][1000 genomes]
rs873070	0.94[CEU][hapmap];0.85[EUR][1000 genomes]
rs873071	0.94[CEU][hapmap];0.85[EUR][1000 genomes]
rs874153	0.94[CEU][hapmap];0.85[EUR][1000 genomes]
rs916389	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9356498	0.94[CEU][hapmap]
rs9366034	0.83[CEU][hapmap]
rs9459701	0.97[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3490076	chr6:166727901-167306743	Strong transcription Weak transcription Flanking Active TSS Genic enhancers Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	25 gene(s)	inside rSNPs	diseases
2	esv3490077	chr6:166727901-167306743	Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	25 gene(s)	inside rSNPs	diseases
3	nsv605260	chr6:166984094-167455139	Enhancers Strong transcription Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
4	nsv432984	chr6:167018915-167181613	Bivalent Enhancer Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv1023649	chr6:167026469-167060732	Active TSS Weak transcription Enhancers Genic enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:79 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:167029200-167039000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr6:167029400-167036800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:167031600-167037200	Enhancers	Placenta Amnion	Placenta Amnion
4	chr6:167032600-167038600	Enhancers	NHLF	lung
5	chr6:167032600-167039400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr6:167032800-167036600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr6:167032800-167039000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr6:167032800-167039000	Weak transcription	Primary neutrophils fromperipheralblood	blood
9	chr6:167033200-167039000	Enhancers	HUVEC	blood vessel
10	chr6:167033600-167036800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr6:167033600-167039000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr6:167034400-167039000	Weak transcription	Liver	Liver
13	chr6:167034600-167036400	Weak transcription	Right Ventricle	heart
14	chr6:167034600-167036800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr6:167034600-167036800	Weak transcription	Esophagus	oesophagus
16	chr6:167034600-167037800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr6:167034600-167037800	Weak transcription	Brain Substantia Nigra	brain
18	chr6:167034600-167037800	Weak transcription	Fetal Lung	lung
19	chr6:167034600-167038800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr6:167034600-167038800	Enhancers	HMEC	breast
21	chr6:167034600-167038800	Weak transcription	HSMMtube	muscle
22	chr6:167034600-167039000	Weak transcription	Duodenum Smooth Muscle	Duodenum
23	chr6:167034800-167036400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
24	chr6:167034800-167036600	Genic enhancers	Muscle Satellite Cultured Cells	--
25	chr6:167034800-167036800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr6:167034800-167036800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr6:167034800-167036800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr6:167034800-167036800	Weak transcription	Aorta	Aorta
29	chr6:167034800-167036800	Weak transcription	Gastric	stomach
30	chr6:167034800-167036800	Weak transcription	Ovary	ovary
31	chr6:167034800-167036800	Weak transcription	Psoas Muscle	Psoas
32	chr6:167034800-167036800	Weak transcription	Right Atrium	heart
33	chr6:167034800-167037000	Enhancers	iPS-20b Cell Line	embryonic stem cell
34	chr6:167034800-167037000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
35	chr6:167034800-167037800	Weak transcription	Adipose Nuclei	Adipose
36	chr6:167034800-167037800	Weak transcription	Fetal Stomach	stomach
37	chr6:167034800-167037800	Weak transcription	HSMM	muscle
38	chr6:167034800-167038000	Weak transcription	Rectal Smooth Muscle	rectum
39	chr6:167034800-167038800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
40	chr6:167034800-167038800	Weak transcription	Stomach Smooth Muscle	stomach
41	chr6:167034800-167039000	Weak transcription	Brain Hippocampus Middle	brain
42	chr6:167034800-167039000	Weak transcription	Brain Inferior Temporal Lobe	brain
43	chr6:167034800-167039000	Weak transcription	Fetal Brain Male	brain
44	chr6:167034800-167039000	Weak transcription	Fetal Kidney	kidney
45	chr6:167034800-167039200	Weak transcription	Colon Smooth Muscle	Colon
46	chr6:167034800-167039400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
47	chr6:167034800-167039800	Weak transcription	Spleen	Spleen
48	chr6:167035000-167036600	Weak transcription	Fetal Heart	heart
49	chr6:167035000-167036800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
50	chr6:167035000-167036800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links