Variant report

Variant	rs7774429
Chromosome Location	chr6:15491390-15491391
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:15247080..15248984-chr6:15490936..15492452,2	MCF-7	breast:
2	chr6:14211103..14211899-chr6:15491273..15491841,2	K562	blood:
3	chr6:15483229..15486068-chr6:15489614..15491902,2	MCF-7	breast:
4	chr6:15491080..15491893-chr6:15623709..15624414,2	K562	blood:
5	chr6:15489579..15491671-chr6:15507006..15508555,2	MCF-7	breast:
6	chr6:15480753..15482538-chr6:15489895..15492218,2	K562	blood:
7	chr6:15478158..15480159-chr6:15489862..15492490,2	K562	blood:

Variant related genes	Relation type
ENSG00000235488	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10949304	0.92[ASN][1000 genomes]
rs11964846	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11966626	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13192234	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13192892	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13194650	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13196869	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13198780	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13202100	0.83[EUR][1000 genomes]
rs13202955	0.83[EUR][1000 genomes]
rs13204842	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13208563	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13209668	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17455404	0.83[EUR][1000 genomes]
rs1967664	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2076056	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2237138	0.83[EUR][1000 genomes]
rs35868206	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3819396	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4712251	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4715975	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4715979	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4715980	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6899342	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6899343	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6917591	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs742099	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs742100	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7756331	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7761778	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7769291	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9383056	0.82[EUR][1000 genomes]
rs9383062	0.83[AFR][1000 genomes];0.88[EUR][1000 genomes]

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	nsv538140	chr6:15217899-15547127	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv538141	chr6:15234675-15509163	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15471000-15502000	Weak transcription	A549	lung
2	chr6:15481200-15491800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr6:15482200-15491400	Weak transcription	Fetal Brain Male	brain
4	chr6:15482400-15491400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
5	chr6:15483200-15491400	Weak transcription	Fetal Heart	heart
6	chr6:15484800-15496400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr6:15486200-15491400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr6:15486400-15491600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
9	chr6:15486600-15491400	Weak transcription	Right Atrium	heart
10	chr6:15486800-15502000	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr6:15487200-15508000	Strong transcription	Monocytes-CD14+_RO01746	blood
12	chr6:15488800-15491800	Genic enhancers	HUES6 Cell Line	embryonic stem cell
13	chr6:15488800-15493000	Genic enhancers	ES-I3 Cell Line	embryonic stem cell
14	chr6:15489000-15491400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr6:15489000-15491600	Weak transcription	Brain Germinal Matrix	brain
16	chr6:15489000-15492600	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
17	chr6:15489200-15491400	Weak transcription	Stomach Mucosa	stomach
18	chr6:15489200-15495800	Weak transcription	HMEC	breast
19	chr6:15489200-15496200	Weak transcription	Small Intestine	intestine
20	chr6:15489200-15496800	Weak transcription	Colonic Mucosa	Colon
21	chr6:15489200-15504400	Weak transcription	Fetal Brain Female	brain
22	chr6:15489400-15491400	Weak transcription	NH-A	brain
23	chr6:15489400-15491600	Weak transcription	Placenta	Placenta
24	chr6:15489400-15491800	Weak transcription	HSMM	muscle
25	chr6:15489400-15493000	Genic enhancers	Fetal Thymus	thymus
26	chr6:15489400-15493200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
27	chr6:15489600-15491400	Genic enhancers	Primary hematopoietic stem cells	blood
28	chr6:15489600-15491400	Weak transcription	Osteobl	bone
29	chr6:15489600-15492800	Genic enhancers	Thymus	Thymus
30	chr6:15489600-15493400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr6:15489600-15495400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
32	chr6:15489800-15491400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
33	chr6:15489800-15491400	Weak transcription	Fetal Lung	lung
34	chr6:15489800-15491400	Weak transcription	GM12878-XiMat	blood
35	chr6:15489800-15491600	Weak transcription	NHLF	lung
36	chr6:15489800-15492000	Weak transcription	NHEK	skin
37	chr6:15489800-15492400	Enhancers	Duodenum Mucosa	Duodenum
38	chr6:15489800-15492400	Genic enhancers	Fetal Intestine Small	intestine
39	chr6:15489800-15493000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr6:15489800-15495200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
41	chr6:15489800-15495600	Weak transcription	Aorta	Aorta
42	chr6:15490000-15491400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
43	chr6:15490000-15491400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
44	chr6:15490000-15491400	Weak transcription	Ovary	ovary
45	chr6:15490000-15491400	Weak transcription	Rectal Mucosa Donor 29	rectum
46	chr6:15490000-15491400	Weak transcription	Rectal Smooth Muscle	rectum
47	chr6:15490000-15491600	Weak transcription	Muscle Satellite Cultured Cells	--
48	chr6:15490000-15491800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
49	chr6:15490000-15492000	Enhancers	iPS-18 Cell Line	embryonic stem cell
50	chr6:15490000-15492200	Enhancers	Primary T helper cells PMA-I stimulated	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links