Variant report

Variant	rs1336246
Chromosome Location	chr6:101192460-101192461
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	chr6:101166704..101169523-chr6:101191232..101192828,2	K562	blood:
2	chr6:101191819..101193985-chr6:101196760..101198268,2	K562	blood:

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10485138	1.00[AFR][1000 genomes]
rs10485140	0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs10485294	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs10485295	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs10485297	0.83[AMR][1000 genomes]
rs12660993	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs12661291	1.00[AFR][1000 genomes]
rs12663536	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs12664207	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs12664223	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs12664256	1.00[AFR][1000 genomes]
rs12664278	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs12664368	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12664920	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12664950	1.00[AFR][1000 genomes]
rs12665824	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs17054315	0.83[AMR][1000 genomes]
rs17060852	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs17060914	1.00[AFR][1000 genomes]
rs17060954	1.00[AFR][1000 genomes]
rs17060978	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs17060985	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs17061014	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs17061023	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs17061060	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17061113	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs17061152	0.83[AMR][1000 genomes]
rs17061158	0.83[AMR][1000 genomes]
rs17061168	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs17061190	0.83[AMR][1000 genomes]
rs17061191	0.83[AMR][1000 genomes]
rs17061195	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs17061206	0.92[CHB][hapmap];0.83[JPT][hapmap];1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs17061234	0.92[CHB][hapmap];0.83[JPT][hapmap];0.83[AMR][1000 genomes]
rs17061235	0.92[CHB][hapmap];0.83[JPT][hapmap];0.83[AMR][1000 genomes]
rs17061236	0.83[AMR][1000 genomes]
rs17061242	0.83[AMR][1000 genomes]
rs34783327	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs72942958	0.94[ASN][1000 genomes]
rs768985	0.83[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949535	chr6:100740293-101469052	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv886445	chr6:101004751-101240763	Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv886453	chr6:101018032-101203051	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv886455	chr6:101049108-101203051	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv886456	chr6:101049108-101277926	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv604270	chr6:101058886-101196080	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Genic enhancers	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv463991	chr6:101072307-101196080	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
8	nsv604272	chr6:101072307-101196080	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
9	nsv463992	chr6:101072307-101197953	Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
10	nsv604273	chr6:101072307-101197953	ZNF genes & repeats Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
11	nsv604274	chr6:101078718-101196080	Weak transcription Strong transcription Genic enhancers Flanking Active TSS Enhancers ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
12	nsv1020692	chr6:101136992-101426071	ZNF genes & repeats Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
13	nsv604275	chr6:101158950-101277926	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
14	nsv886457	chr6:101158950-101487473	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
15	nsv1016353	chr6:101172705-101304041	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
16	nsv1020400	chr6:101172705-101981665	Weak transcription Bivalent/Poised TSS Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
17	nsv538390	chr6:101172705-101981665	Flanking Active TSS Weak transcription ZNF genes & repeats Enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:101166200-101211000	Weak transcription	NH-A	brain
2	chr6:101168600-101211200	Weak transcription	Osteobl	bone
3	chr6:101169000-101211000	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr6:101170800-101199200	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr6:101172200-101198600	Weak transcription	Small Intestine	intestine
6	chr6:101172800-101210800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
7	chr6:101173000-101209000	Weak transcription	K562	blood
8	chr6:101173000-101211000	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr6:101175800-101211200	Weak transcription	Psoas Muscle	Psoas
10	chr6:101177000-101211600	Weak transcription	NHDF-Ad	bronchial
11	chr6:101182200-101214400	Weak transcription	A549	lung
12	chr6:101184400-101304600	Weak transcription	Hela-S3	cervix
13	chr6:101185400-101212600	Weak transcription	Stomach Smooth Muscle	stomach
14	chr6:101186600-101208400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
15	chr6:101186800-101199400	Weak transcription	Colon Smooth Muscle	Colon
16	chr6:101188400-101211400	Weak transcription	Rectal Smooth Muscle	rectum
17	chr6:101189200-101209200	Weak transcription	Right Ventricle	heart
18	chr6:101190200-101199600	Weak transcription	Fetal Brain Male	brain
19	chr6:101190200-101211200	Weak transcription	Fetal Lung	lung
20	chr6:101190200-101211600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
21	chr6:101190400-101205000	Weak transcription	Left Ventricle	heart
22	chr6:101190600-101206400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
23	chr6:101190600-101212600	Weak transcription	HSMMtube	muscle
24	chr6:101190800-101211000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr6:101190800-101216200	Weak transcription	Stomach Mucosa	stomach
26	chr6:101190800-101217400	Weak transcription	NHLF	lung
27	chr6:101191000-101193200	Weak transcription	Duodenum Mucosa	Duodenum
28	chr6:101191000-101193600	Weak transcription	Liver	Liver
29	chr6:101191000-101194600	Weak transcription	Muscle Satellite Cultured Cells	--
30	chr6:101191000-101196400	Weak transcription	HSMM	muscle
31	chr6:101191000-101208200	Weak transcription	Primary T helper cells fromperipheralblood	blood
32	chr6:101191000-101209000	Weak transcription	Lung	lung
33	chr6:101191000-101211200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr6:101191000-101211400	Weak transcription	Fetal Thymus	thymus
35	chr6:101191200-101192800	Weak transcription	Pancreas	Pancrea
36	chr6:101191200-101202400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
37	chr6:101191200-101206400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr6:101191200-101207200	Weak transcription	Primary T cells fromperipheralblood	blood
39	chr6:101191200-101207200	Weak transcription	Cortex derived primary cultured neurospheres	brain
40	chr6:101191200-101207800	Weak transcription	Monocytes-CD14+_RO01746	blood
41	chr6:101191200-101208200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr6:101191200-101209200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
43	chr6:101191200-101209200	Weak transcription	Fetal Stomach	stomach
44	chr6:101191200-101209800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
45	chr6:101191200-101211200	Weak transcription	Fetal Muscle Leg	muscle
46	chr6:101191200-101211400	Weak transcription	Adipose Nuclei	Adipose
47	chr6:101191200-101211600	Weak transcription	Fetal Muscle Trunk	muscle
48	chr6:101191200-101211600	Weak transcription	HepG2	liver
49	chr6:101191200-101211800	Weak transcription	Placenta	Placenta
50	chr6:101191400-101193200	Weak transcription	H9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links