Variant report

Variant	rs231215
Chromosome Location	chr19:36259646-36259647
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr19:36258097..36260654-chr19:36262475..36265649,5	MCF-7	breast:
2	chr19:36255893..36262036-chr19:36262850..36268803,8	MCF-7	breast:
3	chr19:36234932..36236574-chr19:36258515..36260489,2	K562	blood:

Variant related genes	Relation type
ENSG00000267120	Chromatin interaction
ENSG00000004777	Chromatin interaction
ENSG00000161265	Chromatin interaction
ENSG00000205155	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs1262746	1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1262750	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs1262751	1.00[AMR][1000 genomes]
rs1268319	1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs179569	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs231219	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs231220	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs231224	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs231239	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs231240	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs231587	1.00[AMR][1000 genomes]
rs231595	1.00[LWK][hapmap];0.83[MKK][hapmap];1.00[AMR][1000 genomes]
rs2428145	1.00[AMR][1000 genomes]
rs2520310	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs73931233	1.00[AMR][1000 genomes]
rs807490	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432045	chr19:35556260-36520760	Flanking Active TSS Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	191 gene(s)	inside rSNPs	diseases
2	nsv911630	chr19:36149761-36290977	Enhancers Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	69 gene(s)	inside rSNPs	diseases
3	nsv458566	chr19:36156588-36265508	Enhancers Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	58 gene(s)	inside rSNPs	diseases
4	nsv579422	chr19:36156588-36265508	Strong transcription Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Enhancers Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	58 gene(s)	inside rSNPs	diseases
5	nsv911631	chr19:36169285-36290977	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	66 gene(s)	inside rSNPs	diseases
6	nsv911632	chr19:36174176-36288297	Strong transcription Active TSS Flanking Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	66 gene(s)	inside rSNPs	diseases
7	nsv911633	chr19:36206050-36283847	Enhancers Genic enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	61 gene(s)	inside rSNPs	diseases
8	nsv911634	chr19:36206050-36290977	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	61 gene(s)	inside rSNPs	diseases
9	nsv543996	chr19:36210269-36265431	Flanking Bivalent TSS/Enh Active TSS Strong transcription Bivalent/Poised TSS Enhancers Weak transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
10	nsv1057830	chr19:36210269-36279794	Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
11	nsv543997	chr19:36210269-36279794	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
12	nsv911635	chr19:36217333-36283847	Flanking Active TSS Weak transcription Enhancers Genic enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases
13	nsv458567	chr19:36221051-36283847	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases
14	nsv579423	chr19:36221051-36283847	Weak transcription Flanking Active TSS Enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases
15	nsv911636	chr19:36240960-36290977	Weak transcription Genic enhancers Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:36249800-36265600	Weak transcription	Right Atrium	heart
2	chr19:36249800-36265800	Weak transcription	Fetal Kidney	kidney
3	chr19:36250000-36265600	Weak transcription	Brain Substantia Nigra	brain
4	chr19:36250200-36265400	Weak transcription	Primary hematopoietic stem cells	blood
5	chr19:36250400-36260200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr19:36250400-36265400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
7	chr19:36250400-36265600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr19:36250400-36265600	Weak transcription	Psoas Muscle	Psoas
9	chr19:36250400-36265800	Weak transcription	Small Intestine	intestine
10	chr19:36250400-36266000	Weak transcription	Aorta	Aorta
11	chr19:36250600-36265400	Weak transcription	Stomach Mucosa	stomach
12	chr19:36250800-36265400	Weak transcription	Brain Angular Gyrus	brain
13	chr19:36250800-36265600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr19:36251000-36260000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr19:36251000-36260200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr19:36251000-36260200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr19:36251000-36263800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr19:36251000-36265600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
19	chr19:36251000-36265600	Weak transcription	Fetal Brain Male	brain
20	chr19:36251000-36265800	Weak transcription	HUVEC	blood vessel
21	chr19:36251000-36266000	Weak transcription	HSMM	muscle
22	chr19:36251200-36260200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr19:36251400-36260200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
24	chr19:36251400-36260200	Strong transcription	Dnd41	blood
25	chr19:36251400-36260800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr19:36251400-36261400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
27	chr19:36251400-36261600	Strong transcription	Thymus	Thymus
28	chr19:36251400-36265600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
29	chr19:36251600-36260000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr19:36251800-36260000	Strong transcription	Primary T helper cells fromperipheralblood	blood
31	chr19:36252000-36265600	Weak transcription	NHDF-Ad	bronchial
32	chr19:36252400-36260600	Strong transcription	Primary neutrophils fromperipheralblood	blood
33	chr19:36252600-36260000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
34	chr19:36252800-36259800	Strong transcription	Fetal Brain Female	brain
35	chr19:36252800-36260000	Strong transcription	Lung	lung
36	chr19:36253200-36266000	Weak transcription	HSMMtube	muscle
37	chr19:36253400-36262800	Weak transcription	Skeletal Muscle Female	skeletal muscle
38	chr19:36253400-36265400	Weak transcription	Brain Inferior Temporal Lobe	brain
39	chr19:36253400-36265600	Weak transcription	Hela-S3	cervix
40	chr19:36253400-36265600	Weak transcription	NH-A	brain
41	chr19:36253600-36265400	Weak transcription	K562	blood
42	chr19:36253600-36265600	Weak transcription	Rectal Smooth Muscle	rectum
43	chr19:36254000-36265200	Weak transcription	Colon Smooth Muscle	Colon
44	chr19:36254600-36260200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
45	chr19:36254600-36260200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr19:36254800-36260000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
47	chr19:36254800-36260000	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
48	chr19:36254800-36260000	Strong transcription	Cortex derived primary cultured neurospheres	brain
49	chr19:36255000-36260000	Strong transcription	NHLF	lung
50	chr19:36256000-36265400	Weak transcription	Rectal Mucosa Donor 31	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links