Variant report

Variant	rs2619536
Chromosome Location	chr6:15663847-15663848
allele	C/T
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	RCOR1	chr6:15661997-15663987	IMR90	lung:	n/a	n/a
2	REST	chr6:15662170-15663918	H1-neurons	neurons:	n/a	chr6:15662413-15662431 chr6:15662563-15662576 chr6:15662618-15662631 chr6:15662618-15662631 chr6:15663131-15663144
3	CBX3	chr6:15662378-15663928	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:15661311..15664347-chr6:16127901..16131243,6	K562	blood:
2	chr6:15659552..15664792-chr6:16126837..16130644,6	MCF-7	breast:

Variant related genes	Relation type
DTNBP1	TF binding region
ENSG00000007944	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs1123073	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17391774	1.00[ASN][1000 genomes]
rs2619537	0.82[AMR][1000 genomes]
rs2743851	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743852	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743873	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2769561	0.89[CEU][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2769562	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2769563	1.00[CEU][hapmap];0.92[YRI][hapmap];0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2769567	1.00[ASN][1000 genomes]
rs34765387	1.00[ASN][1000 genomes]
rs62395006	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62395016	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62396141	1.00[ASN][1000 genomes]
rs62396142	1.00[ASN][1000 genomes]
rs62396148	1.00[ASN][1000 genomes]
rs62396775	1.00[ASN][1000 genomes]
rs6908299	0.82[CEU][hapmap];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6913257	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs742206	1.00[CEU][hapmap];0.89[YRI][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs742207	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs742208	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7756793	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9283925	1.00[ASN][1000 genomes]
rs9296975	1.00[ASN][1000 genomes]
rs9464816	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9464817	0.80[CEU][hapmap];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9464819	1.00[ASN][1000 genomes]
rs9476890	1.00[ASN][1000 genomes]
rs9476894	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9476897	1.00[ASN][1000 genomes]
rs9476899	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv428136	chr6:15595640-15781241	Enhancers Genic enhancers Weak transcription Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	esv2755670	chr6:15624762-15736008	Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	esv3373756	chr6:15661798-15664346	Active TSS Bivalent/Poised TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15662400-15664000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
2	chr6:15662400-15664000	Active TSS	Brain Substantia Nigra	brain
3	chr6:15662600-15664000	Active TSS	Fetal Lung	lung
4	chr6:15663400-15664000	Flanking Bivalent TSS/Enh	ES-I3 Cell Line	embryonic stem cell
5	chr6:15663400-15664000	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
6	chr6:15663400-15664000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr6:15663400-15664000	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
8	chr6:15663400-15664000	Enhancers	Spleen	Spleen
9	chr6:15663400-15664200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
10	chr6:15663600-15664000	Flanking Bivalent TSS/Enh	iPS-15b Cell Line	embryonic stem cell
11	chr6:15663600-15664000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr6:15663600-15664000	Flanking Active TSS	Brain Anterior Caudate	brain
13	chr6:15663600-15664000	Flanking Active TSS	Brain Hippocampus Middle	brain
14	chr6:15663600-15664000	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
15	chr6:15663600-15664000	Enhancers	Fetal Intestine Small	intestine
16	chr6:15663600-15664000	Enhancers	Fetal Kidney	kidney
17	chr6:15663600-15664000	Enhancers	Fetal Muscle Leg	muscle
18	chr6:15663600-15664000	Enhancers	Placenta	Placenta
19	chr6:15663600-15664200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
20	chr6:15663800-15664000	Bivalent Enhancer	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr6:15663800-15664000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr6:15663800-15664000	Enhancers	Primary B cells from cord blood	blood
23	chr6:15663800-15664000	Enhancers	Primary T cells from cord blood	blood
24	chr6:15663800-15664000	Enhancers	Primary hematopoietic stem cells short term culture	blood
25	chr6:15663800-15664000	Enhancers	Primary T helper naive cells from peripheral blood	blood
26	chr6:15663800-15664000	Enhancers	Primary T helper cells fromperipheralblood	blood
27	chr6:15663800-15664000	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
28	chr6:15663800-15664000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
29	chr6:15663800-15664000	Bivalent Enhancer	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr6:15663800-15664000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr6:15663800-15664000	Enhancers	Brain Angular Gyrus	brain
32	chr6:15663800-15664000	Enhancers	Brain Cingulate Gyrus	brain
33	chr6:15663800-15664000	Bivalent Enhancer	Brain Germinal Matrix	brain
34	chr6:15663800-15664000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
35	chr6:15663800-15664000	Enhancers	Fetal Brain Male	brain
36	chr6:15663800-15664000	Enhancers	Fetal Stomach	stomach
37	chr6:15663800-15664000	Enhancers	Rectal Mucosa Donor 31	rectum
38	chr6:15663800-15664000	Enhancers	Skeletal Muscle Male	skeletal muscle
39	chr6:15663800-15664000	Enhancers	Stomach Smooth Muscle	stomach
40	chr6:15663800-15664000	Enhancers	Hela-S3	cervix
41	chr6:15663800-15664000	Bivalent Enhancer	NHDF-Ad	bronchial
42	chr6:15663800-15664200	Enhancers	Breast Myoepithelial Primary Cells	Breast
43	chr6:15663800-15664200	Enhancers	Primary monocytes fromperipheralblood	blood
44	chr6:15663800-15664200	Enhancers	Aorta	Aorta
45	chr6:15663800-15664200	Enhancers	Colon Smooth Muscle	Colon
46	chr6:15663800-15664200	Enhancers	Dnd41	blood
47	chr6:15663800-15664200	Bivalent Enhancer	HepG2	liver
48	chr6:15663800-15664200	Enhancers	K562	blood
49	chr6:15663800-15665200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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