Variant report

Variant	rs591743
Chromosome Location	chr10:6496436-6496437
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs509907	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs579050	1.00[ASW][hapmap]
rs584413	0.85[YRI][hapmap];0.85[AFR][1000 genomes]
rs589538	0.84[AFR][1000 genomes]
rs599305	1.00[ASW][hapmap];0.92[LWK][hapmap];0.91[MKK][hapmap];0.82[YRI][hapmap];0.92[AFR][1000 genomes]
rs599922	0.80[AFR][1000 genomes]
rs601150	1.00[ASW][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes]
rs601622	1.00[YRI][hapmap]
rs605556	1.00[ASW][hapmap]
rs623158	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs631610	0.92[LWK][hapmap];0.82[YRI][hapmap]
rs632797	1.00[ASW][hapmap]
rs647063	0.85[AFR][1000 genomes]
rs647279	0.92[LWK][hapmap];0.82[YRI][hapmap]
rs668705	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs678843	0.82[YRI][hapmap];0.88[AFR][1000 genomes]
rs681023	1.00[YRI][hapmap]

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	nsv1042286	chr10:5795129-6578445	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
2	nsv1053440	chr10:6354798-6669469	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
3	nsv1047309	chr10:6495583-6714060	Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:6456200-6496600	Weak transcription	Pancreas	Pancrea
2	chr10:6465800-6496600	Weak transcription	Psoas Muscle	Psoas
3	chr10:6465800-6501400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr10:6468200-6496800	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr10:6477400-6503600	Weak transcription	Gastric	stomach
6	chr10:6480200-6501000	Weak transcription	Ovary	ovary
7	chr10:6480800-6497600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr10:6481200-6500200	Weak transcription	Fetal Intestine Small	intestine
9	chr10:6481400-6497800	Weak transcription	Fetal Muscle Trunk	muscle
10	chr10:6484600-6496600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr10:6488200-6497600	Weak transcription	HUES48 Cell Line	embryonic stem cell
12	chr10:6488200-6499600	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr10:6488200-6500200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
14	chr10:6488200-6502000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr10:6488400-6496600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
16	chr10:6488400-6496600	Weak transcription	Brain Anterior Caudate	brain
17	chr10:6488400-6500200	Weak transcription	Esophagus	oesophagus
18	chr10:6488400-6506800	Weak transcription	K562	blood
19	chr10:6490000-6497800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr10:6490400-6497600	Weak transcription	Brain Cingulate Gyrus	brain
21	chr10:6490600-6496800	Weak transcription	Fetal Stomach	stomach
22	chr10:6493400-6516200	Weak transcription	Duodenum Mucosa	Duodenum
23	chr10:6493600-6501200	Weak transcription	Sigmoid Colon	Sigmoid Colon
24	chr10:6496000-6498600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr10:6496000-6499000	Strong transcription	Fetal Thymus	thymus
26	chr10:6496000-6500200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr10:6496000-6502800	Strong transcription	Dnd41	blood
28	chr10:6496000-6508200	Strong transcription	Skeletal Muscle Female	skeletal muscle
29	chr10:6496200-6496600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
30	chr10:6496200-6497000	Strong transcription	Primary hematopoietic stem cells	blood
31	chr10:6496200-6497200	ZNF genes & repeats	Aorta	Aorta
32	chr10:6496200-6497200	ZNF genes & repeats	Lung	lung
33	chr10:6496200-6497400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr10:6496200-6497600	ZNF genes & repeats	Primary T cells from cord blood	blood
35	chr10:6496200-6498600	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
36	chr10:6496200-6498600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr10:6496200-6498800	Strong transcription	Brain Substantia Nigra	brain
38	chr10:6496200-6499400	Strong transcription	Thymus	Thymus
39	chr10:6496200-6499600	Strong transcription	Primary T killer memory cells from peripheral blood	blood
40	chr10:6496200-6500400	Strong transcription	Primary T helper cells PMA-I stimulated	--
41	chr10:6496200-6500600	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
42	chr10:6496200-6500800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
43	chr10:6496200-6501000	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
44	chr10:6496200-6501600	Strong transcription	H9 Cell Line	embryonic stem cell
45	chr10:6496200-6501600	Strong transcription	Fetal Muscle Leg	muscle
46	chr10:6496200-6502000	Strong transcription	Primary T helper memory cells from peripheral blood 2	blood
47	chr10:6496200-6502800	Strong transcription	Primary T cells fromperipheralblood	blood
48	chr10:6496200-6506200	Strong transcription	HUES6 Cell Line	embryonic stem cell
49	chr10:6496200-6508200	Strong transcription	Primary T helper cells fromperipheralblood	blood
50	chr10:6496200-6509000	Strong transcription	Skeletal Muscle Male	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links