Variant report

Variant	rs11968967
Chromosome Location	chr6:150161572-150161573
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOS	chr6:150161440-150162000	MCF10A-Er-Src	breast:	n/a	chr6:150161842-150161853
2	MAX	chr6:150161534-150162380	A549	lung:	n/a	n/a
3	NFIC	chr6:150161246-150162469	SK-N-SH	brain:	n/a	n/a
4	TCF12	chr6:150161242-150162537	SK-N-SH	brain:	n/a	chr6:150161622-150161629
5	GATA3	chr6:150161329-150162447	SK-N-SH	brain:	n/a	chr6:150161820-150161830 chr6:150161844-150161853
6	RAD21	chr6:150161558-150162240	SK-N-SH_RA	brain:	n/a	chr6:150161888-150161907
7	TCF12	chr6:150161424-150162406	A549	lung:	n/a	chr6:150161622-150161629
8	CTCF	chr6:150161553-150161642	GM12878	blood:	n/a	n/a
9	POLR2A	chr6:150161402-150162297	SK-N-SH	brain:	n/a	n/a
10	CTCF	chr6:150161516-150162490	A549	lung:	n/a	chr6:150161887-150161905 chr6:150161888-150161904
11	CTCF	chr6:150161433-150162368	HCT-116	colon:	n/a	chr6:150161887-150161905 chr6:150161888-150161904
12	SIN3AK20	chr6:150161482-150161791	SK-N-SH	brain:	n/a	n/a
13	TCF12	chr6:150161301-150162495	SK-N-SH	brain:	n/a	chr6:150161622-150161629
14	FOSL2	chr6:150161273-150162363	SK-N-SH	brain:	n/a	chr6:150161842-150161853
15	RAD21	chr6:150161528-150162164	MCF-7	breast:	n/a	chr6:150161888-150161907
16	EP300	chr6:150161435-150162281	SK-N-SH_RA	brain:	n/a	chr6:150161479-150161488
17	RAD21	chr6:150161464-150162267	IMR90	lung:	n/a	chr6:150161888-150161907
18	EP300	chr6:150161476-150161822	SK-N-SH_RA	brain:	n/a	chr6:150161479-150161488
19	RAD21	chr6:150161507-150162398	HCT-116	colon:	n/a	chr6:150161888-150161907
20	CTCF	chr6:150161556-150162245	HCT-116	colon:	n/a	chr6:150161887-150161905 chr6:150161888-150161904
21	FOS	chr6:150161430-150161985	MCF10A-Er-Src	breast:	n/a	chr6:150161842-150161853
22	RAD21	chr6:150161359-150162351	HCT-116	colon:	n/a	chr6:150161888-150161907
23	GATA3	chr6:150161417-150162421	SK-N-SH	brain:	n/a	chr6:150161820-150161830 chr6:150161844-150161853
24	FOSL2	chr6:150161276-150162273	A549	lung:	n/a	chr6:150161842-150161853
25	CTCF	chr6:150161530-150162095	HepG2	liver:	n/a	chr6:150161887-150161905 chr6:150161888-150161904
26	GATA2	chr6:150161531-150162489	SH-SY5Y	brain:	n/a	chr6:150161820-150161830 chr6:150161844-150161853
27	CTCF	chr6:150161460-150161610	GM12870	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr6:150160714..150164051-chr6:150166023..150170073,4	MCF-7	breast:
2	chr6:150159974..150162736-chr6:150163125..150166318,3	K562	blood:
3	chr6:150153688..150155920-chr6:150160413..150161947,2	MCF-7	breast:
4	chr6:150161413..150162333-chr6:150185782..150187004,5	MCF-7	breast:
5	chr6:150161516..150164235-chr6:150221796..150224745,2	K562	blood:
6	chr6:150160122..150165164-chr6:150183114..150187569,12	MCF-7	breast:
7	chr6:150159974..150162858-chr6:150163125..150167505,4	K562	blood:

Variant related genes	Relation type
LRP11	TF binding region
ENSG00000268592	Chromatin interaction
ENSG00000120256	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11963775	0.85[AFR][1000 genomes]
rs11965313	0.89[AFR][1000 genomes]
rs73610595	1.00[AFR][1000 genomes]
rs9322211	1.00[MEX][hapmap]
rs9767037	1.00[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv886762	chr6:149866452-150174507	Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	esv1803291	chr6:150018508-150164190	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv886763	chr6:150091219-150174507	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
4	nsv886764	chr6:150114745-150393683	Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
5	nsv517022	chr6:150145001-150426272	Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Strong transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:150073800-150182400	Weak transcription	Fetal Brain Male	brain
2	chr6:150094400-150167200	Weak transcription	Rectal Smooth Muscle	rectum
3	chr6:150105800-150176400	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr6:150112600-150167200	Weak transcription	Colon Smooth Muscle	Colon
5	chr6:150119000-150164000	Weak transcription	Right Ventricle	heart
6	chr6:150120000-150164600	Weak transcription	Fetal Kidney	kidney
7	chr6:150132800-150161800	Weak transcription	Fetal Lung	lung
8	chr6:150133200-150161800	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr6:150133200-150162000	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr6:150135000-150161600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr6:150141400-150167200	Weak transcription	Right Atrium	heart
12	chr6:150143600-150161600	Weak transcription	Left Ventricle	heart
13	chr6:150146200-150167000	Weak transcription	Psoas Muscle	Psoas
14	chr6:150147800-150163600	Weak transcription	Fetal Brain Female	brain
15	chr6:150150600-150166400	Weak transcription	Placenta Amnion	Placenta Amnion
16	chr6:150151200-150161600	Weak transcription	Stomach Mucosa	stomach
17	chr6:150152400-150165400	Weak transcription	HSMMtube	muscle
18	chr6:150152600-150161600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr6:150152800-150161600	Weak transcription	Pancreas	Pancrea
20	chr6:150152800-150161800	Weak transcription	HSMM	muscle
21	chr6:150152800-150172600	Weak transcription	Aorta	Aorta
22	chr6:150153000-150163600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr6:150153000-150167000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr6:150153000-150167800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
25	chr6:150153200-150161600	Weak transcription	Brain Substantia Nigra	brain
26	chr6:150155800-150182600	Weak transcription	Dnd41	blood
27	chr6:150156400-150168400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
28	chr6:150157600-150161600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr6:150157600-150161600	Weak transcription	Brain Hippocampus Middle	brain
30	chr6:150157600-150167000	Weak transcription	Duodenum Smooth Muscle	Duodenum
31	chr6:150158600-150161600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr6:150158600-150161800	Weak transcription	Brain Angular Gyrus	brain
33	chr6:150158600-150163800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr6:150158600-150165400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
35	chr6:150158600-150167200	Weak transcription	Adipose Nuclei	Adipose
36	chr6:150158800-150161600	Weak transcription	Liver	Liver
37	chr6:150158800-150161600	Weak transcription	Brain Cingulate Gyrus	brain
38	chr6:150158800-150161600	Weak transcription	Fetal Muscle Trunk	muscle
39	chr6:150158800-150161600	Weak transcription	Gastric	stomach
40	chr6:150158800-150161600	Weak transcription	Skeletal Muscle Male	skeletal muscle
41	chr6:150158800-150161600	Weak transcription	Stomach Smooth Muscle	stomach
42	chr6:150158800-150161600	Weak transcription	Hela-S3	cervix
43	chr6:150158800-150163400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
44	chr6:150158800-150176400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr6:150159000-150161600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr6:150159000-150161600	Weak transcription	Fetal Muscle Leg	muscle
47	chr6:150159000-150161600	Weak transcription	Placenta	Placenta
48	chr6:150159000-150161600	Weak transcription	Lung	lung
49	chr6:150159000-150161600	Weak transcription	HepG2	liver
50	chr6:150159000-150162000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links