Variant report

Variant	rs611500
Chromosome Location	chr6:4126763-4126764
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:4018891..4022947-chr6:4124925..4128719,4	K562	blood:
2	chr6:4126089..4127852-chr6:4134080..4136039,2	MCF-7	breast:
3	chr6:4126407..4126951-chr6:4155837..4156533,2	MCF-7	breast:
4	chr6:4126380..4128676-chr6:4175535..4177983,2	K562	blood:
5	chr6:4119267..4120773-chr6:4124628..4126878,2	K562	blood:
6	chr6:4125770..4127713-chr6:4129299..4130980,2	MCF-7	breast:

(count:1 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C6orf201-4	chr6:4125589-4129180	NONHSAT107320

No data

Variant related genes	Relation type
ENSG00000254821	Chromatin interaction
ENSG00000112739	Chromatin interaction
ENSG00000198721	Chromatin interaction
ENSG00000272248	Chromatin interaction
ENSG00000230648	Chromatin interaction

Extended variants
information (count: 97 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:91)

rs_ID	r²[population]
rs101418	0.91[ASN][1000 genomes]
rs11755877	0.91[ASN][1000 genomes]
rs1204951	0.92[ASN][1000 genomes]
rs2326408	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2473597	0.84[ASN][1000 genomes]
rs2745453	0.84[ASN][1000 genomes]
rs2745455	0.89[ASN][1000 genomes]
rs2783063	0.90[ASN][1000 genomes]
rs2783073	1.00[ASN][1000 genomes]
rs28878015	0.91[ASN][1000 genomes]
rs4959271	0.89[ASN][1000 genomes]
rs582008	0.91[ASN][1000 genomes]
rs583782	0.91[ASN][1000 genomes]
rs583881	0.91[ASN][1000 genomes]
rs584585	1.00[ASN][1000 genomes]
rs590675	0.84[ASN][1000 genomes]
rs592953	0.84[ASN][1000 genomes]
rs593291	0.83[ASN][1000 genomes]
rs594662	0.84[ASN][1000 genomes]
rs595413	0.84[ASN][1000 genomes]
rs608195	0.93[ASN][1000 genomes]
rs609946	0.84[ASN][1000 genomes]
rs612022	1.00[ASN][1000 genomes]
rs612477	0.93[ASN][1000 genomes]
rs613028	0.97[ASN][1000 genomes]
rs613260	1.00[ASN][1000 genomes]
rs613709	1.00[ASN][1000 genomes]
rs617604	0.90[ASN][1000 genomes]
rs617790	1.00[ASN][1000 genomes]
rs619439	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs619483	0.91[ASN][1000 genomes]
rs619873	1.00[ASN][1000 genomes]
rs620484	1.00[ASN][1000 genomes]
rs620901	0.83[ASN][1000 genomes]
rs621205	0.90[ASN][1000 genomes]
rs626080	0.97[ASN][1000 genomes]
rs627259	0.93[ASN][1000 genomes]
rs629362	1.00[ASN][1000 genomes]
rs633290	1.00[ASN][1000 genomes]
rs634114	0.91[ASN][1000 genomes]
rs634698	1.00[ASN][1000 genomes]
rs634970	0.91[ASN][1000 genomes]
rs638329	0.91[ASN][1000 genomes]
rs639905	0.84[ASN][1000 genomes]
rs643232	1.00[ASN][1000 genomes]
rs646385	0.90[ASN][1000 genomes]
rs648900	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs649725	1.00[ASN][1000 genomes]
rs651246	0.84[ASN][1000 genomes]
rs653431	0.84[ASN][1000 genomes]
rs654621	0.84[ASN][1000 genomes]
rs654982	0.84[ASN][1000 genomes]
rs659025	1.00[ASN][1000 genomes]
rs659051	0.91[ASN][1000 genomes]
rs659305	1.00[ASN][1000 genomes]
rs660560	1.00[ASN][1000 genomes]
rs660957	0.91[ASN][1000 genomes]
rs661404	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs661657	0.92[ASN][1000 genomes]
rs662834	0.91[ASN][1000 genomes]
rs664299	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs664635	0.91[ASN][1000 genomes]
rs664839	0.82[ASN][1000 genomes]
rs664898	0.91[ASN][1000 genomes]
rs665728	0.85[ASN][1000 genomes]
rs665894	0.89[ASN][1000 genomes]
rs666254	0.86[ASN][1000 genomes]
rs668070	0.88[ASN][1000 genomes]
rs670932	0.84[ASN][1000 genomes]
rs671364	0.84[ASN][1000 genomes]
rs674543	0.89[ASN][1000 genomes]
rs676683	1.00[ASN][1000 genomes]
rs678285	0.91[ASN][1000 genomes]
rs679303	0.91[ASN][1000 genomes]
rs688176	0.83[ASN][1000 genomes]
rs689308	1.00[ASN][1000 genomes]
rs694058	0.91[ASN][1000 genomes]
rs694903	0.93[ASN][1000 genomes]
rs707991	0.93[ASN][1000 genomes]
rs7166	1.00[ASN][1000 genomes]
rs7744628	1.00[ASN][1000 genomes]
rs7756630	0.80[ASN][1000 genomes]
rs7757606	1.00[ASN][1000 genomes]
rs853416	1.00[ASN][1000 genomes]
rs853417	1.00[ASN][1000 genomes]
rs853418	0.91[ASN][1000 genomes]
rs9328220	1.00[ASN][1000 genomes]
rs9378395	0.83[ASN][1000 genomes]
rs9405219	0.90[ASN][1000 genomes]
rs9405701	0.91[ASN][1000 genomes]
rs942475	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532020	chr6:3417520-4140257	Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv1022968	chr6:3862744-4272502	Enhancers Genic enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
3	nsv538106	chr6:3862744-4272502	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
4	nsv1030104	chr6:4062894-4240269	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
5	esv2422231	chr6:4100333-4233454	Enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer 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	23 gene(s)	inside rSNPs	diseases
6	esv2422457	chr6:4100333-4377396	Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:4111000-4134200	Weak transcription	Stomach Mucosa	stomach
2	chr6:4113800-4134600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr6:4114000-4131400	Strong transcription	Brain Anterior Caudate	brain
4	chr6:4114200-4132200	Strong transcription	Primary T cells from cord blood	blood
5	chr6:4114200-4132800	Strong transcription	Cortex derived primary cultured neurospheres	brain
6	chr6:4114200-4133400	Strong transcription	Stomach Smooth Muscle	stomach
7	chr6:4114400-4130200	Strong transcription	Liver	Liver
8	chr6:4114400-4131800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
9	chr6:4114400-4132400	Strong transcription	Fetal Thymus	thymus
10	chr6:4114600-4130000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr6:4114600-4130600	Strong transcription	Brain Germinal Matrix	brain
12	chr6:4114600-4133600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
13	chr6:4114800-4132800	Strong transcription	Duodenum Mucosa	Duodenum
14	chr6:4114800-4133400	Strong transcription	Fetal Muscle Trunk	muscle
15	chr6:4115200-4128600	Strong transcription	Brain Hippocampus Middle	brain
16	chr6:4115200-4129800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr6:4115200-4131200	Strong transcription	Primary monocytes fromperipheralblood	blood
18	chr6:4115200-4131200	Strong transcription	Skeletal Muscle Female	skeletal muscle
19	chr6:4115200-4132000	Strong transcription	H1 Cell Line	embryonic stem cell
20	chr6:4115200-4132000	Strong transcription	HUES64 Cell Line	embryonic stem cell
21	chr6:4115200-4132600	Strong transcription	Primary T helper cells PMA-I stimulated	--
22	chr6:4115200-4132800	Strong transcription	Left Ventricle	heart
23	chr6:4115200-4133000	Strong transcription	Primary T cells fromperipheralblood	blood
24	chr6:4115200-4133800	Strong transcription	HUES48 Cell Line	embryonic stem cell
25	chr6:4115400-4129000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
26	chr6:4115400-4131000	Strong transcription	Fetal Brain Female	brain
27	chr6:4115400-4131200	Strong transcription	Monocytes-CD14+_RO01746	blood
28	chr6:4115400-4131400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr6:4115400-4133200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
30	chr6:4115400-4133400	Strong transcription	Primary T helper cells fromperipheralblood	blood
31	chr6:4115400-4133800	Strong transcription	Rectal Mucosa Donor 29	rectum
32	chr6:4115600-4129000	Strong transcription	Skeletal Muscle Male	skeletal muscle
33	chr6:4115600-4129400	Strong transcription	Brain Angular Gyrus	brain
34	chr6:4115600-4131000	Strong transcription	Brain Cingulate Gyrus	brain
35	chr6:4115600-4131000	Strong transcription	Rectal Mucosa Donor 31	rectum
36	chr6:4115600-4131200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
37	chr6:4115600-4131400	Strong transcription	Fetal Lung	lung
38	chr6:4115600-4132200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
39	chr6:4115600-4132200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
40	chr6:4115600-4132600	Strong transcription	Primary T helper naive cells from peripheral blood	blood
41	chr6:4116200-4127400	Weak transcription	GM12878-XiMat	blood
42	chr6:4116200-4132000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
43	chr6:4119400-4128200	Weak transcription	Psoas Muscle	Psoas
44	chr6:4121200-4132000	Strong transcription	Primary hematopoietic stem cells	blood
45	chr6:4121600-4130400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr6:4121600-4132200	Strong transcription	HUES6 Cell Line	embryonic stem cell
47	chr6:4121600-4133200	Strong transcription	Primary B cells from peripheral blood	blood
48	chr6:4121800-4130600	Strong transcription	Thymus	Thymus
49	chr6:4121800-4132000	Strong transcription	Fetal Muscle Leg	muscle
50	chr6:4121800-4132400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain

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