Variant report

Variant	rs6939303
Chromosome Location	chr6:128759101-128759102
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs17055831	1.00[LWK][hapmap];0.94[MKK][hapmap]
rs17055841	0.84[LWK][hapmap]
rs17055850	0.89[LWK][hapmap];0.92[MKK][hapmap]
rs4352700	0.89[LWK][hapmap];0.81[MKK][hapmap]
rs6919635	0.94[AFR][1000 genomes];0.83[AMR][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	nsv1033443	chr6:128306654-128899203	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv538440	chr6:128306654-128899203	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv886649	chr6:128399657-128808054	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv1020071	chr6:128579774-129048919	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
5	nsv538441	chr6:128579774-129048919	Flanking Active TSS Weak transcription Strong transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
6	nsv830800	chr6:128710631-128878435	Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128739800-128762600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr6:128740800-128777000	Weak transcription	Fetal Intestine Small	intestine
3	chr6:128743600-128759400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr6:128748200-128759600	Weak transcription	Fetal Stomach	stomach
5	chr6:128748600-128759200	Weak transcription	Brain Cingulate Gyrus	brain
6	chr6:128748600-128759200	Weak transcription	Gastric	stomach
7	chr6:128748800-128759400	Weak transcription	Brain Anterior Caudate	brain
8	chr6:128753200-128777000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr6:128753400-128759600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
10	chr6:128753600-128759200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr6:128754600-128759600	Weak transcription	HUVEC	blood vessel
12	chr6:128754800-128761200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr6:128754800-128767000	Weak transcription	NHEK	skin
14	chr6:128755600-128759600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr6:128756200-128759600	Weak transcription	Right Atrium	heart
16	chr6:128756400-128759200	Weak transcription	Pancreas	Pancrea
17	chr6:128756400-128776600	Weak transcription	Fetal Intestine Large	intestine
18	chr6:128756800-128759400	Weak transcription	HUES64 Cell Line	embryonic stem cell
19	chr6:128756800-128759400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr6:128757000-128759200	Weak transcription	HUES6 Cell Line	embryonic stem cell
21	chr6:128757000-128759400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
22	chr6:128757000-128759400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr6:128757000-128759600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
24	chr6:128758200-128759200	Weak transcription	Colon Smooth Muscle	Colon
25	chr6:128758200-128763600	Enhancers	HUES48 Cell Line	embryonic stem cell
26	chr6:128758600-128760200	Enhancers	Brain Substantia Nigra	brain
27	chr6:128758600-128763800	Weak transcription	Stomach Mucosa	stomach
28	chr6:128758800-128759800	Enhancers	Left Ventricle	heart
29	chr6:128758800-128760000	Enhancers	Breast Myoepithelial Primary Cells	Breast
30	chr6:128758800-128760000	Enhancers	Ovary	ovary
31	chr6:128758800-128761200	Enhancers	Cortex derived primary cultured neurospheres	brain
32	chr6:128758800-128766600	Weak transcription	Rectal Mucosa Donor 29	rectum
33	chr6:128759000-128759200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr6:128759000-128759400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr6:128759000-128759400	Enhancers	Brain Angular Gyrus	brain
36	chr6:128759000-128759600	Enhancers	Brain Inferior Temporal Lobe	brain
37	chr6:128759000-128759800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
38	chr6:128759000-128759800	Enhancers	Right Ventricle	heart
39	chr6:128759000-128760000	Enhancers	H9 Cell Line	embryonic stem cell
40	chr6:128759000-128760000	Enhancers	Fetal Thymus	thymus
41	chr6:128759000-128760200	Enhancers	H1 Cell Line	embryonic stem cell
42	chr6:128759000-128760200	Enhancers	Fetal Brain Male	brain
43	chr6:128759000-128760200	Enhancers	Fetal Heart	heart
44	chr6:128759000-128760400	Enhancers	Brain Hippocampus Middle	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links