Variant report

Variant	rs10275592
Chromosome Location	chr7:129248502-129248503
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:13)
CpG islands
(count:0)
Chromatin interactive
region (count:14)
LncRNA
region (count:3)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:13 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr7:129248448-129248715	K562	blood:	n/a	n/a
2	POLR2A	chr7:129248296-129248631	HepG2	liver:	n/a	n/a
3	POLR2A	chr7:129244215-129249497	HepG2	liver:	n/a	n/a
4	POLR2A	chr7:129248346-129249015	MCF10A-Er-Src	breast:	n/a	n/a
5	POLR2A	chr7:129248493-129249248	MCF10A-Er-Src	breast:	n/a	n/a
6	POLR2A	chr7:129248475-129248642	MCF-7	breast:	n/a	n/a
7	POLR2A	chr7:129248188-129248716	SK-N-MC	brain:	n/a	n/a
8	POLR2A	chr7:129248502-129248646	Hela-S3	cervix:	n/a	n/a
9	POLR2A	chr7:129248371-129249242	K562	blood:	n/a	n/a
10	JUN	chr7:129248317-129253489	K562	blood:	n/a	chr7:129253092-129253104 chr7:129249696-129249709 chr7:129253258-129253267 chr7:129249723-129249736
11	POLR2A	chr7:129248216-129249874	K562	blood:	n/a	n/a
12	POLR2A	chr7:129248331-129248902	GM12878	blood:	n/a	n/a
13	POLR2A	chr7:129248163-129248526	HepG2	liver:	n/a	n/a

No data

(count:14 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr7:128861878..128864970-chr7:129248280..129251155,3	K562	blood:
2	chr7:129149565..129151781-chr7:129245619..129248568,2	K562	blood:
3	chr7:129244786..129248579-chr7:129273930..129277174,4	MCF-7	breast:
4	chr7:129247321..129249726-chr7:129464736..129466636,2	MCF-7	breast:
5	chr7:129228492..129230780-chr7:129245998..129248645,2	K562	blood:
6	chr7:129139279..129144298-chr7:129248057..129253593,12	MCF-7	breast:
7	chr7:129212889..129217763-chr7:129247804..129250930,5	K562	blood:
8	chr7:129247164..129250870-chr7:129275593..129280578,4	K562	blood:
9	chr7:128947155..128949553-chr7:129248473..129251078,2	K562	blood:
10	chr7:129208350..129211242-chr7:129248110..129249888,2	K562	blood:
11	chr7:129174530..129176611-chr7:129248438..129250911,2	K562	blood:
12	chr7:129131493..129133001-chr7:129248481..129251293,2	K562	blood:
13	chr7:129166809..129169289-chr7:129245985..129248526,2	K562	blood:
14	chr7:129140689..129142785-chr7:129246762..129249920,3	MCF-7	breast:

(count:3 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-UBE2H-2	chr7:129242678-129251482	NONHSAT123298
2	lnc-NRF1-1	chr7:129248294-129249284	NONHSAT123300
3	lnc-UBE2H-2	chr7:129244389-129251471	ENSG00000273329.1

No data

Variant related genes	Relation type
NRF1	TF binding region
ENSG00000240204	Chromatin interaction
ENSG00000158467	Chromatin interaction

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs10215964	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[MKK][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10226046	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10245497	1.00[CEU][hapmap];0.85[CHB][hapmap];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10249998	0.99[AFR][1000 genomes];0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10252513	0.91[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs10255077	1.00[CHB][hapmap]
rs10279839	0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10808238	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10808240	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs10954244	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10954246	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1450878	1.00[CEU][hapmap];0.85[CHB][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1562833	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.91[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1619066	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1882094	0.88[YRI][hapmap]
rs1975644	0.86[EUR][1000 genomes]
rs2402958	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2402965	0.93[ASN][1000 genomes]
rs2402966	0.91[CEU][hapmap];1.00[CHB][hapmap];0.82[YRI][hapmap];0.89[ASN][1000 genomes]
rs2402968	1.00[CHB][hapmap];0.86[YRI][hapmap];0.86[ASN][1000 genomes]
rs2402969	1.00[CHB][hapmap]
rs2402972	1.00[CHB][hapmap];0.88[CHD][hapmap]
rs2896418	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2896419	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2896422	1.00[CHB][hapmap]
rs2896423	1.00[CHB][hapmap]
rs4292630	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs4348430	0.89[ASN][1000 genomes]
rs4520104	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4728171	1.00[CEU][hapmap];0.82[CHB][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4728177	1.00[CHB][hapmap]
rs4731600	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4731607	0.99[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4731608	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs4731612	0.90[CEU][hapmap];1.00[CHB][hapmap]
rs4731621	1.00[CHB][hapmap];0.88[CHD][hapmap]
rs602616	0.86[EUR][1000 genomes]
rs6467252	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6467253	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6467255	1.00[CEU][hapmap];0.85[CHB][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6467257	0.91[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];0.82[YRI][hapmap];0.86[ASN][1000 genomes]
rs676366	0.86[EUR][1000 genomes]
rs690686	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs692489	0.85[CHB][hapmap]
rs6946418	0.88[YRI][hapmap]
rs6954452	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6958958	1.00[CHB][hapmap];0.88[CHD][hapmap]
rs6961102	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6966688	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6967348	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.94[MKK][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6969441	0.88[YRI][hapmap]
rs7778085	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.93[ASN][1000 genomes]
rs7786760	0.93[ASN][1000 genomes]
rs7788769	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7788849	0.90[ASN][1000 genomes]
rs7794909	0.86[CHB][hapmap]
rs7797035	0.97[EUR][1000 genomes]
rs7799885	0.99[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7802041	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7802940	1.00[CHB][hapmap];0.88[CHD][hapmap]
rs7803431	0.91[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs7805465	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs896156	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9690361	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9691578	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9792084	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[MKK][hapmap];0.94[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

No data

Chromatin state (count:108 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:129235200-129249000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr7:129235200-129249800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr7:129235200-129250200	Weak transcription	Right Atrium	heart
4	chr7:129236000-129249000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr7:129237000-129248800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr7:129237000-129249800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr7:129238800-129250400	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr7:129240200-129250400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr7:129242800-129250400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr7:129243800-129250200	Weak transcription	Stomach Smooth Muscle	stomach
11	chr7:129244600-129249200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr7:129244800-129250000	Weak transcription	Fetal Brain Female	brain
13	chr7:129244800-129250400	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr7:129245000-129249600	Weak transcription	NH-A	brain
15	chr7:129245000-129249800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
16	chr7:129245000-129250400	Weak transcription	Stomach Mucosa	stomach
17	chr7:129245200-129249000	Weak transcription	Lung	lung
18	chr7:129245200-129249800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
19	chr7:129245200-129250400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
20	chr7:129245200-129250600	Weak transcription	Esophagus	oesophagus
21	chr7:129245400-129249000	Weak transcription	Pancreas	Pancrea
22	chr7:129245400-129250600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr7:129245600-129249400	Weak transcription	Spleen	Spleen
24	chr7:129245600-129250200	Weak transcription	HUES6 Cell Line	embryonic stem cell
25	chr7:129245600-129250200	Weak transcription	Sigmoid Colon	Sigmoid Colon
26	chr7:129245600-129250200	Weak transcription	HUVEC	blood vessel
27	chr7:129245600-129250600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
28	chr7:129245800-129249400	Strong transcription	A549	lung
29	chr7:129245800-129250200	Weak transcription	Rectal Mucosa Donor 29	rectum
30	chr7:129245800-129250400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr7:129245800-129250800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
32	chr7:129246000-129250000	Strong transcription	HMEC	breast
33	chr7:129246000-129250400	Enhancers	Primary neutrophils fromperipheralblood	blood
34	chr7:129246200-129249400	Weak transcription	Osteobl	bone
35	chr7:129246200-129249800	Weak transcription	Brain Hippocampus Middle	brain
36	chr7:129246200-129250200	Weak transcription	Brain Anterior Caudate	brain
37	chr7:129246200-129250200	Weak transcription	NHLF	lung
38	chr7:129246200-129250400	Weak transcription	Brain Inferior Temporal Lobe	brain
39	chr7:129246200-129250600	Weak transcription	Aorta	Aorta
40	chr7:129246200-129250600	Weak transcription	Left Ventricle	heart
41	chr7:129246400-129249400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr7:129246400-129249600	Strong transcription	HSMM	muscle
43	chr7:129246400-129250200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr7:129246400-129250200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
45	chr7:129246400-129250400	Weak transcription	Brain Substantia Nigra	brain
46	chr7:129246600-129249600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
47	chr7:129246600-129249600	Strong transcription	NHEK	skin
48	chr7:129246600-129249800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr7:129246600-129250000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr7:129246600-129250000	Strong transcription	Fetal Muscle Trunk	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links