Variant report

Variant	rs6721921
Chromosome Location	chr2:97566501-97566502
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr2:97566468-97566569	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr2:97549904..97552223-chr2:97564807..97567554,3	K562	blood:
2	chr2:97559351..97562496-chr2:97564447..97568319,4	K562	blood:
3	chr2:97565741..97567251-chr2:97581816..97583514,2	K562	blood:

Variant related genes	Relation type
FAM178B	TF binding region
ENSG00000168754	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10191663	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11888101	0.98[EUR][1000 genomes]
rs13407036	0.93[CEU][hapmap];0.89[JPT][hapmap];0.93[EUR][1000 genomes]
rs17119655	1.00[CEU][hapmap];0.82[GIH][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17119656	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2314651	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28612110	0.98[EUR][1000 genomes]
rs4260285	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs57675226	0.98[ASN][1000 genomes]
rs58984980	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs59131346	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59660613	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62152871	0.98[ASN][1000 genomes]
rs62152901	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62152902	0.98[ASN][1000 genomes]
rs62152903	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62152904	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62152905	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62152906	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62152907	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62152908	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62152910	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6576990	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];0.89[JPT][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6576996	0.80[MEX][hapmap]
rs6717064	0.82[ASW][hapmap];1.00[CEU][hapmap];0.82[GIH][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];0.92[TSI][hapmap];0.88[YRI][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6718420	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6734673	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6735969	0.85[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.98[ASN][1000 genomes]
rs6751815	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72811651	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7572852	0.93[EUR][1000 genomes]
rs7589232	0.94[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];0.95[CHD][hapmap];0.92[GIH][hapmap];0.89[JPT][hapmap];0.90[LWK][hapmap];0.91[MEX][hapmap];1.00[MKK][hapmap];0.96[TSI][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]
rs7591775	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7592101	0.93[CEU][hapmap];0.91[MEX][hapmap];0.88[TSI][hapmap];0.92[EUR][1000 genomes]
rs7603256	0.93[CEU][hapmap];0.85[GIH][hapmap];0.89[JPT][hapmap];0.92[TSI][hapmap];0.98[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933671	chr2:96739308-97652262	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
2	nsv1000780	chr2:96740430-97671395	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
3	nsv535826	chr2:96740430-97671395	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
4	nsv874677	chr2:96756547-97717345	Strong transcription Enhancers Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	162 gene(s)	inside rSNPs	diseases
5	nsv1001204	chr2:96766559-97728507	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	162 gene(s)	inside rSNPs	diseases
6	nsv535827	chr2:96766559-97728507	Enhancers Active TSS Strong transcription Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	162 gene(s)	inside rSNPs	diseases
7	nsv874680	chr2:97309574-97678319	Genic enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
8	nsv526313	chr2:97333492-97660619	Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
9	nsv874681	chr2:97410949-97577343	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
10	nsv874682	chr2:97423626-97567389	Transcr. at gene 5' and 3' Strong transcription Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:97558200-97572200	Weak transcription	Right Atrium	heart
2	chr2:97560600-97566600	Enhancers	Placenta	Placenta
3	chr2:97561200-97566800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr2:97561200-97566800	Enhancers	Spleen	Spleen
5	chr2:97561600-97572200	Weak transcription	Psoas Muscle	Psoas
6	chr2:97561800-97572000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr2:97562000-97572200	Weak transcription	Gastric	stomach
8	chr2:97562200-97569200	Weak transcription	Brain Cingulate Gyrus	brain
9	chr2:97562400-97569200	Weak transcription	Brain Substantia Nigra	brain
10	chr2:97562400-97569200	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr2:97562400-97572000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr2:97562400-97572000	Weak transcription	Duodenum Mucosa	Duodenum
13	chr2:97562600-97569200	Weak transcription	Primary hematopoietic stem cells	blood
14	chr2:97562600-97569200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
15	chr2:97562600-97569200	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr2:97562600-97569600	Weak transcription	Fetal Brain Female	brain
17	chr2:97563400-97569200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr2:97563400-97575200	Weak transcription	Primary T helper cells fromperipheralblood	blood
19	chr2:97563800-97572200	Weak transcription	Brain Angular Gyrus	brain
20	chr2:97563800-97573200	Weak transcription	Rectal Mucosa Donor 29	rectum
21	chr2:97564200-97572200	Weak transcription	Rectal Mucosa Donor 31	rectum
22	chr2:97564800-97569000	Weak transcription	K562	blood
23	chr2:97565000-97569000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr2:97565000-97572000	Weak transcription	Right Ventricle	heart
25	chr2:97565000-97572000	Weak transcription	HSMMtube	muscle
26	chr2:97565000-97575000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
27	chr2:97565200-97566800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
28	chr2:97565200-97568400	Weak transcription	Colon Smooth Muscle	Colon
29	chr2:97565200-97569200	Weak transcription	Rectal Smooth Muscle	rectum
30	chr2:97565200-97569400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
31	chr2:97565200-97569400	Weak transcription	Skeletal Muscle Male	skeletal muscle
32	chr2:97565200-97570000	Weak transcription	Primary T cells from cord blood	blood
33	chr2:97565200-97572000	Weak transcription	Fetal Lung	lung
34	chr2:97565200-97572200	Weak transcription	Ovary	ovary
35	chr2:97565400-97568400	Weak transcription	Placenta Amnion	Placenta Amnion
36	chr2:97565400-97569200	Weak transcription	Stomach Smooth Muscle	stomach
37	chr2:97565400-97569400	Weak transcription	Skeletal Muscle Female	skeletal muscle
38	chr2:97565400-97572200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr2:97565800-97569400	Weak transcription	HSMM	muscle
40	chr2:97566000-97569400	Weak transcription	Fetal Thymus	thymus
41	chr2:97566200-97569200	Weak transcription	Primary T cells fromperipheralblood	blood
42	chr2:97566400-97566600	Enhancers	Esophagus	oesophagus

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