Variant report

Variant	rs66670017
Chromosome Location	chr6:33763563-33763564
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:33762823..33764594-chr6:33767158..33770034,2	K562	blood:
2	chr6:33762825..33765119-chr6:33771052..33773006,2	K562	blood:
3	chr6:33763437..33765350-chr6:34117421..34119459,2	K562	blood:
4	chr6:33752857..33754428-chr6:33763521..33765942,2	MCF-7	breast:
5	chr6:33756053..33759472-chr6:33760488..33763867,4	MCF-7	breast:
6	chr6:33760837..33764079-chr6:33785814..33788727,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000161904	Chromatin interaction
ENSG00000096395	Chromatin interaction

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs10456075	0.82[ASN][1000 genomes]
rs10456420	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10456421	0.93[EUR][1000 genomes]
rs10947418	0.86[AFR][1000 genomes]
rs10947432	0.82[ASN][1000 genomes]
rs11755257	0.86[AFR][1000 genomes]
rs11757612	0.86[AFR][1000 genomes]
rs11758330	0.86[AFR][1000 genomes]
rs12153877	0.98[EUR][1000 genomes]
rs12189725	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12192035	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12192087	0.92[EUR][1000 genomes]
rs12193658	0.87[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs12195409	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12198383	0.87[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs12199132	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12200154	0.86[AFR][1000 genomes]
rs12203688	0.88[ASN][1000 genomes]
rs12204620	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12204992	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12205398	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs12211490	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12211554	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12211565	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12215329	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12660955	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12661400	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs12662447	0.87[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs13200063	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13204162	0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs13206228	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13207666	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13213889	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13214874	0.82[ASN][1000 genomes]
rs2274459	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2281831	0.88[ASN][1000 genomes]
rs2296749	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34139049	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34339105	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34460651	1.00[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs34472165	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34869648	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34884883	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35274562	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35328423	0.88[EUR][1000 genomes]
rs35366046	0.92[EUR][1000 genomes]
rs35445446	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs35646598	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35698850	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs35721478	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35797388	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35964955	0.83[EUR][1000 genomes]
rs36122085	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3793080	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3806107	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs66617522	0.87[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs68168863	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6925337	0.94[EUR][1000 genomes]
rs71565393	0.86[AFR][1000 genomes]
rs729376	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs751095	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs755239	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs877187	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][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	nsv885772	chr6:33638180-33767727	Bivalent Enhancer Genic enhancers Strong transcription Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	28 gene(s)	inside rSNPs	diseases
2	nsv462897	chr6:33717770-33778964	Genic enhancers Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv602839	chr6:33717770-33778964	Enhancers Genic enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv462898	chr6:33723383-33768897	Weak transcription Active TSS Strong transcription Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases
5	nsv602840	chr6:33723383-33768897	Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:33757600-33763600	Enhancers	H1 Cell Line	embryonic stem cell
2	chr6:33757600-33775800	Weak transcription	Right Atrium	heart
3	chr6:33758400-33763600	Enhancers	ES-I3 Cell Line	embryonic stem cell
4	chr6:33759000-33765600	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr6:33759200-33763600	Enhancers	iPS-20b Cell Line	embryonic stem cell
6	chr6:33760400-33763600	Enhancers	Cortex derived primary cultured neurospheres	brain
7	chr6:33760400-33763600	Bivalent Enhancer	HepG2	liver
8	chr6:33760600-33763600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
9	chr6:33762000-33763600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
10	chr6:33762000-33763600	Enhancers	Duodenum Mucosa	Duodenum
11	chr6:33762000-33763600	Enhancers	Fetal Intestine Small	intestine
12	chr6:33762000-33766800	Enhancers	HUES6 Cell Line	embryonic stem cell
13	chr6:33762200-33763600	Enhancers	HUES64 Cell Line	embryonic stem cell
14	chr6:33762400-33763600	Enhancers	HUES48 Cell Line	embryonic stem cell
15	chr6:33762400-33763600	Bivalent Enhancer	Fetal Muscle Trunk	muscle
16	chr6:33762400-33763800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr6:33762400-33767800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr6:33762600-33763600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr6:33762600-33763600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr6:33762600-33764000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
21	chr6:33762800-33763600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr6:33763000-33765000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr6:33763000-33766200	Enhancers	iPS-18 Cell Line	embryonic stem cell
24	chr6:33763200-33763600	Bivalent Enhancer	Placenta	Placenta
25	chr6:33763200-33767000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr6:33763400-33765200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
27	chr6:33763400-33765200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr6:33763400-33767200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links