Variant report

Variant	rs397888163
Chromosome Location	chr6:76311029-76311030
allele	-/A
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	POLR2A	chr6:76310802-76312829	GM19099	blood:	n/a	n/a
2	POLR2A	chr6:76310972-76312561	PFSK-1	brain:	n/a	n/a
3	HCFC1	chr6:76310925-76313089	Hela-S3	cervix:	n/a	n/a
4	MXI1	chr6:76310463-76313759	SK-N-SH	brain:	n/a	n/a
5	REST	chr6:76310375-76313045	H1-neurons	neurons:	n/a	chr6:76311494-76311512 chr6:76311501-76311511
6	POLR2A	chr6:76311013-76313050	H1-hESC	embryonic stem cell:	n/a	n/a
7	IRF1	chr6:76310744-76312417	K562	blood:	n/a	chr6:76310854-76310868 chr6:76311856-76311876 chr6:76310855-76310868 chr6:76310855-76310868 chr6:76310853-76310867
8	MYC	chr6:76311010-76312798	MCF10A-Er-Src	breast:	n/a	chr6:76311659-76311669
9	TBP	chr6:76310660-76311967	GM12878	blood:	n/a	n/a
10	TBP	chr6:76310478-76311937	Hela-S3	cervix:	n/a	n/a
11	POLR2A	chr6:76310760-76312800	Hela-S3	cervix:	n/a	n/a
12	POLR2A	chr6:76310608-76313367	MCF10A-Er-Src	breast:	n/a	n/a
13	JUND	chr6:76310983-76312543	K562	blood:	n/a	n/a
14	CUX1	chr6:76310766-76311370	GM12878	blood:	n/a	n/a
15	E2F4	chr6:76310934-76311836	MCF10A-Er-Src	breast:	n/a	chr6:76311435-76311444 chr6:76311733-76311743 chr6:76311730-76311740
16	POLR2A	chr6:76310552-76313108	GM12891	blood:	n/a	n/a
17	PML	chr6:76310950-76312731	GM12878	blood:	n/a	chr6:76311944-76311952
18	POLR2A	chr6:76310541-76313675	MCF10A-Er-Src	breast:	n/a	n/a
19	MAX	chr6:76311024-76312668	HCT-116	colon:	n/a	chr6:76311659-76311669
20	POLR2A	chr6:76310389-76312884	Raji	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr6:74229402..74231607-chr6:76310929..76313785,2	K562	blood:
2	chr6:76310717..76312305-chr6:76374454..76377244,2	K562	blood:
3	chr6:76310925..76313590-chr6:76457201..76459634,2	K562	blood:
4	chr19:1247352..1249824-chr6:76310629..76312777,2	MCF-7	breast:
5	chr6:76301594..76304347-chr6:76310698..76312348,3	MCF-7	breast:
6	chr1:149223806..149225375-chr6:76310132..76311971,2	MCF-7	breast:
7	chr6:75993176..75995308-chr6:76310710..76312367,2	MCF-7	breast:
8	chr6:74228897..74233348-chr6:76310739..76313863,5	K562	blood:
9	chr6:75953153..75955682-chr6:76309116..76311798,2	K562	blood:
10	chr6:75993142..75995708-chr6:76310246..76313188,4	K562	blood:
11	chr6:76300158..76302964-chr6:76309745..76311544,2	K562	blood:
12	chr6:76310839..76313480-chr6:76354672..76356986,2	MCF-7	breast:
13	chr6:76310342..76312305-chr6:76373129..76377244,3	K562	blood:

Variant related genes	Relation type
SENP6	TF binding region
ENSG00000196586	Chromatin interaction
ENSG00000112697	Chromatin interaction
ENSG00000225793	Chromatin interaction
ENSG00000252137	Chromatin interaction
ENSG00000229862	Chromatin interaction
ENSG00000112695	Chromatin interaction
ENSG00000112701	Chromatin interaction
ENSG00000156508	Chromatin interaction
ENSG00000206737	Chromatin interaction
ENSG00000167470	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:19 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1027915	chr6:75893542-76510113	Active TSS Enhancers Strong transcription Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	70 gene(s)	inside rSNPs	diseases
2	nsv538311	chr6:75893542-76510113	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	70 gene(s)	inside rSNPs	diseases
3	nsv1022428	chr6:76023118-76575620	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	48 gene(s)	inside rSNPs	diseases
4	nsv538312	chr6:76023118-76575620	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	48 gene(s)	inside rSNPs	diseases
5	nsv1032245	chr6:76045537-76545703	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	47 gene(s)	inside rSNPs	diseases
6	nsv538313	chr6:76045537-76545703	Strong transcription Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	47 gene(s)	inside rSNPs	diseases
7	nsv1019328	chr6:76154751-76604197	Enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases
8	nsv538314	chr6:76154751-76604197	Enhancers Strong transcription Active TSS Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases
9	nsv1023331	chr6:76238459-76482117	Strong transcription ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
10	nsv538315	chr6:76238459-76482117	Enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
11	nsv1017542	chr6:76238459-76537447	Strong transcription Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
12	nsv1031745	chr6:76257913-76493355	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
13	nsv538316	chr6:76257913-76493355	Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
14	nsv533100	chr6:76257914-76493354	Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
15	nsv1023749	chr6:76287578-76482117	Weak transcription Flanking Active TSS Genic enhancers Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
16	nsv538317	chr6:76287578-76482117	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
17	nsv1021090	chr6:76306100-76759397	Weak transcription Enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
18	nsv538318	chr6:76306100-76759397	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
19	esv3372148	chr6:76310257-76313105	Weak transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	20 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:76309000-76311200	Weak transcription	Colonic Mucosa	Colon
2	chr6:76309000-76311200	Weak transcription	Ovary	ovary
3	chr6:76309000-76311400	Weak transcription	Spleen	Spleen
4	chr6:76310400-76311200	Flanking Active TSS	Muscle Satellite Cultured Cells	--
5	chr6:76310400-76311200	Enhancers	Brain Substantia Nigra	brain
6	chr6:76310400-76311200	Flanking Active TSS	Fetal Lung	lung
7	chr6:76310400-76311200	Flanking Active TSS	Hela-S3	cervix
8	chr6:76310400-76311400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr6:76310400-76314000	Active TSS	Brain Germinal Matrix	brain
10	chr6:76310400-76314400	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr6:76310600-76311200	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
12	chr6:76310600-76311200	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
13	chr6:76310600-76311200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr6:76310600-76311200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr6:76310600-76311200	Flanking Active TSS	Adipose Nuclei	Adipose
16	chr6:76310600-76311400	Flanking Active TSS	Primary B cells from cord blood	blood
17	chr6:76310600-76311400	Flanking Active TSS	Primary hematopoietic stem cells	blood
18	chr6:76310600-76311400	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
19	chr6:76310600-76311400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr6:76310600-76311400	Flanking Active TSS	Duodenum Mucosa	Duodenum
21	chr6:76310600-76311400	Flanking Active TSS	HUVEC	blood vessel
22	chr6:76310600-76311400	Flanking Active TSS	NH-A	brain
23	chr6:76310600-76311600	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr6:76310600-76313400	Active TSS	Brain Cingulate Gyrus	brain
25	chr6:76310600-76313800	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
26	chr6:76310600-76313800	Active TSS	Psoas Muscle	Psoas
27	chr6:76310600-76314000	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr6:76310600-76314200	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
29	chr6:76310600-76314200	Active TSS	Pancreatic Islets	Pancreatic Islet
30	chr6:76310800-76311200	Flanking Active TSS	Primary B cells from peripheral blood	blood
31	chr6:76310800-76311200	Flanking Active TSS	Primary T cells from cord blood	blood
32	chr6:76310800-76311200	Enhancers	Fetal Heart	heart
33	chr6:76310800-76311200	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
34	chr6:76310800-76311200	Active TSS	Right Atrium	heart
35	chr6:76310800-76311400	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
36	chr6:76310800-76312400	Active TSS	Primary T cells fromperipheralblood	blood
37	chr6:76310800-76312400	Active TSS	Primary T helper memory cells from peripheral blood 1	blood
38	chr6:76310800-76312600	Active TSS	Thymus	Thymus
39	chr6:76310800-76313200	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
40	chr6:76310800-76313200	Active TSS	Cortex derived primary cultured neurospheres	brain
41	chr6:76310800-76313400	Active TSS	Fetal Thymus	thymus
42	chr6:76310800-76313400	Active TSS	Skeletal Muscle Female	skeletal muscle
43	chr6:76310800-76313600	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
44	chr6:76310800-76313600	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
45	chr6:76310800-76313600	Active TSS	Primary hematopoietic stem cells short term culture	blood
46	chr6:76310800-76313600	Active TSS	Primary T killer memory cells from peripheral blood	blood
47	chr6:76310800-76313600	Active TSS	Colon Smooth Muscle	Colon
48	chr6:76310800-76313600	Active TSS	Rectal Smooth Muscle	rectum
49	chr6:76310800-76313800	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
50	chr6:76310800-76314000	Active TSS	H1 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links