Variant report

Variant	rs7761612
Chromosome Location	chr6:149705578-149705579
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:149703892..149707802-chr6:149748749..149751962,4	MCF-7	breast:
2	chr6:149704358..149706531-chr6:149865675..149867741,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SUMO4-2	chr6:149704969-149707007	NONHSAT115498

Variant related genes	Relation type
ENSG00000131013	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs11961781	1.00[MEX][hapmap]
rs17085985	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17086054	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17087579	1.00[MEX][hapmap]
rs34024129	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35391071	1.00[EUR][1000 genomes]
rs35507156	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55763048	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56126528	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56390023	1.00[EUR][1000 genomes]
rs56836556	1.00[EUR][1000 genomes]
rs57234155	1.00[EUR][1000 genomes]
rs57240808	1.00[EUR][1000 genomes]
rs58467138	1.00[EUR][1000 genomes]
rs59090184	0.87[AMR][1000 genomes]
rs59181586	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59582367	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60598581	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60923183	1.00[EUR][1000 genomes]
rs6926168	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6926360	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6934491	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73604793	1.00[EUR][1000 genomes]
rs73779304	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73779305	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73779307	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73779311	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73779312	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73779313	1.00[EUR][1000 genomes]
rs73779314	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73779330	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73779333	1.00[EUR][1000 genomes]
rs73779345	1.00[EUR][1000 genomes]
rs73779346	1.00[EUR][1000 genomes]
rs73779354	1.00[EUR][1000 genomes]
rs73779366	1.00[EUR][1000 genomes]
rs73779373	1.00[EUR][1000 genomes]
rs73779376	1.00[EUR][1000 genomes]
rs7740647	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7760102	1.00[EUR][1000 genomes]
rs7761312	1.00[MEX][hapmap]
rs935386	1.00[MEX][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9498306	1.00[MEX][hapmap]
rs9498309	1.00[MEX][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	nsv1024106	chr6:149622349-149745053	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv522875	chr6:149643709-149762537	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
3	nsv530444	chr6:149654540-149848997	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 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	chr6:149682600-149709200	Weak transcription	Psoas Muscle	Psoas
2	chr6:149686000-149709000	Weak transcription	Stomach Mucosa	stomach
3	chr6:149687800-149726400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr6:149695400-149709600	Strong transcription	Monocytes-CD14+_RO01746	blood
5	chr6:149697400-149706400	Strong transcription	Dnd41	blood
6	chr6:149697400-149708200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr6:149697600-149709000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr6:149697600-149713600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr6:149698400-149709600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr6:149698800-149705800	Strong transcription	Primary T helper naive cells from peripheral blood	blood
11	chr6:149698800-149707600	Strong transcription	Cortex derived primary cultured neurospheres	brain
12	chr6:149699000-149706800	Strong transcription	Primary T helper cells fromperipheralblood	blood
13	chr6:149699000-149707000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr6:149699000-149707200	Strong transcription	HUES64 Cell Line	embryonic stem cell
15	chr6:149699000-149707800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr6:149699200-149705600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr6:149700400-149709000	Weak transcription	Fetal Heart	heart
18	chr6:149700400-149728400	Weak transcription	Hela-S3	cervix
19	chr6:149700400-149732400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr6:149700600-149708000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr6:149700600-149709200	Weak transcription	Pancreas	Pancrea
22	chr6:149700600-149721200	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr6:149700600-149721200	Weak transcription	Colonic Mucosa	Colon
24	chr6:149700600-149721200	Weak transcription	Right Ventricle	heart
25	chr6:149700600-149730800	Weak transcription	Fetal Brain Male	brain
26	chr6:149700800-149706800	Weak transcription	HMEC	breast
27	chr6:149700800-149721000	Weak transcription	K562	blood
28	chr6:149700800-149721200	Weak transcription	Aorta	Aorta
29	chr6:149700800-149732800	Weak transcription	Pancreatic Islets	Pancreatic Islet
30	chr6:149701000-149705800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr6:149701000-149710800	Weak transcription	NHDF-Ad	bronchial
32	chr6:149701200-149710200	Weak transcription	Esophagus	oesophagus
33	chr6:149701200-149721200	Weak transcription	Brain Cingulate Gyrus	brain
34	chr6:149701400-149706600	Weak transcription	NHEK	skin
35	chr6:149701400-149707600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
36	chr6:149701400-149707600	Weak transcription	Colon Smooth Muscle	Colon
37	chr6:149701400-149709000	Weak transcription	Rectal Smooth Muscle	rectum
38	chr6:149701400-149710800	Weak transcription	Muscle Satellite Cultured Cells	--
39	chr6:149701400-149717400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
40	chr6:149701400-149717800	Weak transcription	Fetal Kidney	kidney
41	chr6:149701400-149721200	Weak transcription	H1 Cell Line	embryonic stem cell
42	chr6:149701400-149730800	Weak transcription	H9 Cell Line	embryonic stem cell
43	chr6:149701400-149734200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
44	chr6:149701600-149707800	Weak transcription	Small Intestine	intestine
45	chr6:149701600-149712600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
46	chr6:149701600-149733600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
47	chr6:149702000-149705800	Strong transcription	NH-A	brain
48	chr6:149702200-149709200	Weak transcription	Skeletal Muscle Male	skeletal muscle
49	chr6:149702400-149718800	Weak transcription	HUVEC	blood vessel
50	chr6:149702400-149721200	Weak transcription	Fetal Brain Female	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links