Variant report

Variant	rs201468276
Chromosome Location	chr10:6130429-6130430
allele	G/T
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	CTCF	chr10:6130288-6132114	SK-N-SH	brain:	n/a	chr10:6131172-6131185 chr10:6131800-6131813 chr10:6131176-6131185 chr10:6131066-6131079
2	CTCF	chr10:6130325-6131122	MCF-7	breast:	n/a	chr10:6131066-6131079
3	CTCF	chr10:6129833-6132689	A549	lung:	n/a	chr10:6131172-6131185 chr10:6132605-6132618 chr10:6131800-6131813 chr10:6131176-6131185 chr10:6131066-6131079
4	MTA3	chr10:6130360-6130971	GM12878	blood:	n/a	n/a
5	CTCF	chr10:6130184-6131035	HCT-116	colon:	n/a	n/a
6	TEAD4	chr10:6130395-6131154	SK-N-SH	brain:	n/a	n/a
7	REST	chr10:6130410-6131976	H1-neurons	neurons:	n/a	chr10:6130986-6130999
8	ESRRA	chr10:6130366-6131639	GM12878	blood:	n/a	chr10:6131379-6131391 chr10:6131536-6131549 chr10:6131372-6131391
9	CTCF	chr10:6130372-6131131	HepG2	liver:	n/a	chr10:6131066-6131079
10	MAZ	chr10:6130080-6132305	IMR90	lung:	n/a	n/a
11	JUN	chr10:6130185-6131937	K562	blood:	n/a	chr10:6130328-6130340 chr10:6130744-6130758
12	HCFC1	chr10:6130362-6131597	Hela-S3	cervix:	n/a	n/a
13	CTCF	chr10:6130363-6131076	K562	blood:	n/a	n/a
14	SETDB1	chr10:6130328-6131016	U2OS	brain:	n/a	n/a
15	CTCF	chr10:6130240-6131160	HCT-116	colon:	n/a	chr10:6131066-6131079
16	FOXM1	chr10:6130395-6131173	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr10:6101613..6103309-chr10:6128330..6130665,2	MCF-7	breast:
2	chr10:6128377..6132115-chr10:6241834..6247197,6	MCF-7	breast:
3	chr10:6129764..6131854-chr10:6149478..6152087,2	MCF-7	breast:
4	chr10:6130329..6130942-chr17:58224606..58225403,2	MCF-7	breast:
5	chr10:6018064..6019912-chr10:6129955..6132156,2	K562	blood:
6	chr10:6114985..6117778-chr10:6128679..6130430,2	MCF-7	breast:
7	chr10:5989843..5990785-chr10:6130083..6130917,2	K562	blood:
8	chr10:6129825..6133257-chr10:6241985..6247329,10	MCF-7	breast:
9	chr10:5986795..5989162-chr10:6128663..6130950,2	K562	blood:
10	chr10:6116771..6117539-chr10:6130301..6130858,2	MCF-7	breast:
11	chr10:6018064..6021783-chr10:6129304..6132316,4	K562	blood:
12	chr10:6128980..6130903-chr10:6206068..6209123,3	K562	blood:
13	chr10:6083497..6085137-chr10:6128481..6130673,2	MCF-7	breast:
14	chr10:6129204..6131748-chr10:6244207..6246414,2	K562	blood:
15	chr10:6130184..6130942-chr10:6245055..6246031,2	MCF-7	breast:

Variant related genes	Relation type
RBM17	TF binding region
ENSG00000134470	Chromatin interaction
ENSG00000170525	Chromatin interaction
ENSG00000232807	Chromatin interaction
ENSG00000213994	Chromatin interaction
ENSG00000134453	Chromatin interaction

Extended variants
information (count: 5 )
Associated
traits (count: 0)

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	esv34061	chr10:5726821-6225187	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv1042286	chr10:5795129-6578445	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
3	nsv894815	chr10:6108439-6161781	Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv1040397	chr10:6129759-6158697	Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	esv3410151	chr10:6129771-6132319	Active TSS Flanking Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:6124800-6131000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr10:6126000-6131000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr10:6126200-6131000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr10:6128200-6131000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
5	chr10:6128400-6130600	Weak transcription	Psoas Muscle	Psoas
6	chr10:6128600-6130600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr10:6128600-6131000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr10:6128800-6130600	Weak transcription	Hela-S3	cervix
9	chr10:6128800-6131000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr10:6128800-6131000	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr10:6129000-6130600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr10:6129000-6130600	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr10:6129000-6130600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr10:6129000-6130600	Weak transcription	Colonic Mucosa	Colon
15	chr10:6129000-6130600	Weak transcription	Gastric	stomach
16	chr10:6129000-6130600	Weak transcription	Left Ventricle	heart
17	chr10:6129000-6130600	Weak transcription	Pancreas	Pancrea
18	chr10:6129000-6130600	Weak transcription	Thymus	Thymus
19	chr10:6129000-6130600	Weak transcription	Spleen	Spleen
20	chr10:6129000-6130800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
21	chr10:6129000-6131000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
22	chr10:6129000-6131000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr10:6129000-6131000	Weak transcription	Ovary	ovary
24	chr10:6129000-6131000	Weak transcription	Right Ventricle	heart
25	chr10:6129000-6131200	Weak transcription	Placenta	Placenta
26	chr10:6129000-6131400	Weak transcription	Fetal Heart	heart
27	chr10:6129200-6130600	Weak transcription	Monocytes-CD14+_RO01746	blood
28	chr10:6129200-6131000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr10:6130000-6130600	Enhancers	Primary B cells from cord blood	blood
30	chr10:6130200-6131000	Enhancers	Primary T cells from cord blood	blood
31	chr10:6130200-6131000	Enhancers	Primary T helper cells fromperipheralblood	blood
32	chr10:6130200-6132000	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr10:6130400-6130600	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
34	chr10:6130400-6130600	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
35	chr10:6130400-6130600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr10:6130400-6130600	Enhancers	Primary T cells fromperipheralblood	blood
37	chr10:6130400-6130600	Enhancers	Primary hematopoietic stem cells short term culture	blood
38	chr10:6130400-6130600	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
39	chr10:6130400-6130600	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
40	chr10:6130400-6130600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
41	chr10:6130400-6130600	Enhancers	Muscle Satellite Cultured Cells	--
42	chr10:6130400-6130600	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr10:6130400-6130600	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr10:6130400-6130600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr10:6130400-6130600	Enhancers	Liver	Liver
46	chr10:6130400-6130600	Flanking Active TSS	Brain Angular Gyrus	brain
47	chr10:6130400-6130600	Enhancers	Brain Cingulate Gyrus	brain
48	chr10:6130400-6130600	Flanking Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
49	chr10:6130400-6130600	Flanking Active TSS	Brain Substantia Nigra	brain
50	chr10:6130400-6130600	Flanking Active TSS	Colon Smooth Muscle	Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links