Variant report

Variant	rs9403616
Chromosome Location	chr6:145156780-145156781
allele	C/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	MAFF	chr6:145156483-145156837	HepG2	liver:	n/a	chr6:145156645-145156663
2	MAFK	chr6:145156479-145156837	IMR90	lung:	n/a	chr6:145156718-145156727 chr6:145156647-145156662
3	MAFF	chr6:145156471-145156838	K562	blood:	n/a	chr6:145156645-145156663
4	MAFK	chr6:145156466-145156835	HepG2	liver:	n/a	chr6:145156718-145156727 chr6:145156647-145156662
5	MAFK	chr6:145156490-145156873	K562	blood:	n/a	chr6:145156718-145156727 chr6:145156647-145156662
6	MAFK	chr6:145156486-145156835	HepG2	liver:	n/a	chr6:145156718-145156727 chr6:145156647-145156662
7	POLR2A	chr6:145156581-145157609	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:145154339..145157220-chr6:145158653..145160590,2	MCF-7	breast:
2	chr6:145141754..145144576-chr6:145155600..145157131,2	K562	blood:

Variant related genes	Relation type
UTRN	TF binding region
ENSG00000152818	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10499237	1.00[YRI][hapmap]
rs11546879	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13195905	0.82[CHB][hapmap];0.82[JPT][hapmap];0.87[YRI][hapmap];0.81[AMR][1000 genomes]
rs13198393	0.81[CHB][hapmap]
rs13202460	0.81[CHB][hapmap]
rs13204600	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13208561	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13210728	0.82[CHB][hapmap];0.82[JPT][hapmap];0.81[AMR][1000 genomes]
rs13212915	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13213382	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13218938	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1856418	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2297844	0.91[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2297845	0.86[JPT][hapmap];0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2297846	0.90[JPT][hapmap];0.88[YRI][hapmap];0.95[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs35415004	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs36083145	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4131501	0.81[CHB][hapmap]
rs4476850	0.82[JPT][hapmap]
rs4495289	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4642498	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9321993	0.91[JPT][hapmap]
rs9373428	0.82[CHB][hapmap];0.87[JPT][hapmap];0.82[YRI][hapmap];0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs9373431	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9376858	0.81[CHB][hapmap];0.87[JPT][hapmap];0.87[YRI][hapmap];0.81[AMR][1000 genomes]
rs9386082	0.81[AMR][1000 genomes]
rs9390219	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs9390240	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9390242	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9399506	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs9399508	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9399509	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9399513	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9403600	0.87[YRI][hapmap]
rs9403603	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs9403610	0.81[CHB][hapmap];0.87[JPT][hapmap];0.88[YRI][hapmap];0.81[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1016747	chr6:144917411-145599874	Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv830833	chr6:145001310-145201143	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
3	nsv886740	chr6:145105354-145199259	Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	1 gene(s)	inside rSNPs	diseases
4	nsv886741	chr6:145123326-145165362	ZNF genes & repeats Strong transcription Weak transcription Enhancers Genic enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:145099600-145165800	Weak transcription	Small Intestine	intestine
2	chr6:145116400-145169000	Weak transcription	Rectal Smooth Muscle	rectum
3	chr6:145117400-145175200	Strong transcription	Monocytes-CD14+_RO01746	blood
4	chr6:145126600-145169400	Weak transcription	Stomach Mucosa	stomach
5	chr6:145130600-145163800	Weak transcription	NHEK	skin
6	chr6:145130800-145156800	Weak transcription	Osteobl	bone
7	chr6:145130800-145172200	Weak transcription	NH-A	brain
8	chr6:145131000-145157000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr6:145135400-145166000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr6:145135600-145156800	Weak transcription	Lung	lung
11	chr6:145135600-145157600	Weak transcription	GM12878-XiMat	blood
12	chr6:145137400-145157000	Weak transcription	Psoas Muscle	Psoas
13	chr6:145137400-145176800	Weak transcription	Fetal Heart	heart
14	chr6:145137800-145175800	Strong transcription	Primary monocytes fromperipheralblood	blood
15	chr6:145140200-145157000	Weak transcription	Brain Hippocampus Middle	brain
16	chr6:145140200-145161600	Strong transcription	Primary B cells from cord blood	blood
17	chr6:145141400-145172000	Weak transcription	Brain Substantia Nigra	brain
18	chr6:145141400-145175200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr6:145142000-145171400	Weak transcription	HMEC	breast
20	chr6:145143000-145173600	Strong transcription	Primary T cells fromperipheralblood	blood
21	chr6:145145200-145157200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr6:145145400-145157000	Weak transcription	Cortex derived primary cultured neurospheres	brain
23	chr6:145145400-145157400	Weak transcription	Fetal Kidney	kidney
24	chr6:145145400-145157600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
25	chr6:145145400-145157600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
26	chr6:145145400-145158800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr6:145145400-145167400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
28	chr6:145146400-145167400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
29	chr6:145148000-145162000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
30	chr6:145148400-145157200	Weak transcription	Placenta Amnion	Placenta Amnion
31	chr6:145149600-145157200	Weak transcription	Pancreatic Islets	Pancreatic Islet
32	chr6:145149600-145157200	Weak transcription	Placenta	Placenta
33	chr6:145150000-145156800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr6:145150000-145162200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr6:145150200-145156800	Weak transcription	HUVEC	blood vessel
36	chr6:145150600-145157000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr6:145150800-145167800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
38	chr6:145151400-145157600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
39	chr6:145151800-145164200	Strong transcription	Primary T cells from cord blood	blood
40	chr6:145152000-145162000	Weak transcription	Brain Inferior Temporal Lobe	brain
41	chr6:145152800-145162400	Strong transcription	Rectal Mucosa Donor 31	rectum
42	chr6:145153400-145161600	Weak transcription	Brain Anterior Caudate	brain
43	chr6:145153600-145157200	Weak transcription	H9 Cell Line	embryonic stem cell
44	chr6:145153600-145161400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr6:145154200-145164400	Strong transcription	Liver	Liver
46	chr6:145154200-145175200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
47	chr6:145154400-145162000	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
48	chr6:145154400-145162200	Strong transcription	Primary T killer memory cells from peripheral blood	blood
49	chr6:145154400-145162600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
50	chr6:145154400-145165200	Strong transcription	Adipose Nuclei	Adipose

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links