Variant report

Variant	rs6432023
Chromosome Location	chr2:9736874-9736875
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:9729940..9731942-chr2:9735786..9737660,2	MCF-7	breast:
2	chr2:9735508..9738809-chr2:9769718..9772514,3	MCF-7	breast:
3	chr2:9736847..9738709-chr2:9758595..9761225,2	K562	blood:
4	chr2:9729625..9733750-chr2:9734391..9737280,4	K562	blood:
5	chr2:9735520..9737713-chr2:9751112..9753286,2	MCF-7	breast:
6	chr2:9729553..9733750-chr2:9733992..9737827,4	K562	blood:

Variant related genes	Relation type
ENSG00000134308	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10169269	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10210225	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10929590	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1111976	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11674769	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11674777	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11887863	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11890807	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11902264	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12476008	1.00[JPT][hapmap]
rs12692388	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13415136	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16867062	1.00[JPT][hapmap]
rs16867074	1.00[JPT][hapmap]
rs2357157	0.94[ASN][1000 genomes]
rs3791748	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3951115	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4668625	1.00[YRI][hapmap]
rs4669400	0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62119427	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6432018	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6432019	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6432020	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6432024	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6432025	1.00[JPT][hapmap];0.88[YRI][hapmap];0.94[ASN][1000 genomes]
rs6706227	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6734469	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6745213	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7556678	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7556757	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7558086	0.95[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7565646	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7569485	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7596929	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7597961	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv580915	chr2:9308148-9844178	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	70 gene(s)	inside rSNPs	diseases
2	nsv214045	chr2:9734039-9742991	Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:9696800-9767600	Weak transcription	Gastric	stomach
2	chr2:9719200-9747800	Weak transcription	Lung	lung
3	chr2:9723800-9739800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr2:9726000-9739800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr2:9728400-9739400	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr2:9728600-9739200	Weak transcription	Primary neutrophils fromperipheralblood	blood
7	chr2:9728800-9739200	Weak transcription	Colonic Mucosa	Colon
8	chr2:9729800-9738200	Weak transcription	Thymus	Thymus
9	chr2:9730400-9738400	Weak transcription	Fetal Stomach	stomach
10	chr2:9730600-9738200	Weak transcription	Brain Germinal Matrix	brain
11	chr2:9731200-9737800	Weak transcription	Fetal Brain Female	brain
12	chr2:9731800-9738400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr2:9732200-9738200	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr2:9732200-9738200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr2:9732200-9738200	Weak transcription	Fetal Muscle Trunk	muscle
16	chr2:9732200-9738200	Weak transcription	Fetal Thymus	thymus
17	chr2:9732200-9738400	Weak transcription	HUES48 Cell Line	embryonic stem cell
18	chr2:9732200-9738400	Weak transcription	Primary B cells from cord blood	blood
19	chr2:9732200-9738400	Weak transcription	Fetal Kidney	kidney
20	chr2:9732200-9739000	Weak transcription	Liver	Liver
21	chr2:9732200-9739400	Weak transcription	H1 Cell Line	embryonic stem cell
22	chr2:9732200-9739400	Weak transcription	Psoas Muscle	Psoas
23	chr2:9732400-9738400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr2:9732400-9738400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
25	chr2:9732400-9738400	Weak transcription	Rectal Mucosa Donor 31	rectum
26	chr2:9732400-9747600	Weak transcription	Placenta	Placenta
27	chr2:9732600-9738800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr2:9732800-9737000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr2:9732800-9738200	Weak transcription	Fetal Lung	lung
30	chr2:9733400-9737200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr2:9733400-9738200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
32	chr2:9733800-9737200	Enhancers	Skeletal Muscle Female	skeletal muscle
33	chr2:9734000-9738200	Weak transcription	Left Ventricle	heart
34	chr2:9734000-9748000	Weak transcription	Pancreas	Pancrea
35	chr2:9734200-9737000	Enhancers	Cortex derived primary cultured neurospheres	brain
36	chr2:9734200-9737000	Enhancers	Brain Hippocampus Middle	brain
37	chr2:9734200-9737000	Enhancers	NHLF	lung
38	chr2:9734200-9737200	Enhancers	Primary B cells from peripheral blood	blood
39	chr2:9734200-9737200	Enhancers	Skeletal Muscle Male	skeletal muscle
40	chr2:9734200-9737400	Enhancers	Osteobl	bone
41	chr2:9734400-9737000	Genic enhancers	HSMM	muscle
42	chr2:9734400-9737200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
43	chr2:9734400-9737400	Enhancers	Primary T killer memory cells from peripheral blood	blood
44	chr2:9734400-9737400	Enhancers	NH-A	brain
45	chr2:9734600-9737000	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
46	chr2:9734600-9737200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
47	chr2:9734600-9737400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
48	chr2:9734600-9748000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
49	chr2:9734800-9737200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr2:9734800-9737400	Enhancers	Primary T helper naive cells from peripheral blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links