Variant report

Variant	rs9378918
Chromosome Location	chr6:4915159-4915160
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:4909132..4912021-chr6:4912164..4915211,3	K562	blood:
2	chr6:4907717..4910185-chr6:4913859..4916843,2	MCF-7	breast:
3	chr6:4914506..4916957-chr6:4923942..4927545,3	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs1113341	0.92[EUR][1000 genomes]
rs1891046	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3930304	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4144546	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4960047	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4960049	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62384663	0.87[ASN][1000 genomes]
rs6904931	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6924037	0.97[ASN][1000 genomes]
rs7738275	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7738459	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7739834	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7742807	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7759221	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7770206	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7771387	0.84[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9378917	0.84[ASN][1000 genomes]
rs9378919	0.97[ASN][1000 genomes]
rs9378920	0.84[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9392068	0.84[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9392640	0.94[ASN][1000 genomes]
rs9392641	0.87[ASN][1000 genomes]
rs9405786	0.97[ASN][1000 genomes]

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	nsv1023527	chr6:4729592-5387176	Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	esv2422499	chr6:4745428-5073222	Enhancers Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
3	nsv830577	chr6:4834567-5050544	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv462622	chr6:4904380-5172009	Active TSS Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh 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 miRNA target site	19 gene(s)	inside rSNPs	diseases
5	nsv600871	chr6:4904380-5172009	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:4895000-4917000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr6:4900200-4915200	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr6:4900200-4918800	Weak transcription	Rectal Smooth Muscle	rectum
4	chr6:4902000-4918400	Weak transcription	Primary neutrophils fromperipheralblood	blood
5	chr6:4905800-4931200	Weak transcription	HepG2	liver
6	chr6:4907600-4915600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
7	chr6:4907600-4925200	Weak transcription	Fetal Heart	heart
8	chr6:4908000-4935600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
9	chr6:4908200-4917000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
10	chr6:4908200-4934800	Weak transcription	Primary B cells from cord blood	blood
11	chr6:4908800-4915800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr6:4908800-4920800	Weak transcription	Thymus	Thymus
13	chr6:4908800-4924400	Weak transcription	Primary hematopoietic stem cells	blood
14	chr6:4909000-4915200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
15	chr6:4909000-4916600	Strong transcription	Monocytes-CD14+_RO01746	blood
16	chr6:4910800-4916600	Weak transcription	GM12878-XiMat	blood
17	chr6:4911000-4930400	Weak transcription	Cortex derived primary cultured neurospheres	brain
18	chr6:4911000-4935200	Weak transcription	Primary monocytes fromperipheralblood	blood
19	chr6:4911800-4915400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
20	chr6:4912400-4915400	Enhancers	HUES6 Cell Line	embryonic stem cell
21	chr6:4912400-4915800	Enhancers	H1 Cell Line	embryonic stem cell
22	chr6:4912600-4915200	Enhancers	iPS-18 Cell Line	embryonic stem cell
23	chr6:4912600-4915400	Enhancers	Left Ventricle	heart
24	chr6:4912800-4916000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr6:4912800-4916600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr6:4912800-4931200	Weak transcription	Rectal Mucosa Donor 29	rectum
27	chr6:4913000-4915200	Enhancers	Adipose Nuclei	Adipose
28	chr6:4913000-4915400	Enhancers	Fetal Muscle Leg	muscle
29	chr6:4913000-4915800	Weak transcription	Primary T helper cells fromperipheralblood	blood
30	chr6:4913000-4915800	Enhancers	Skeletal Muscle Male	skeletal muscle
31	chr6:4913000-4916000	Enhancers	Ovary	ovary
32	chr6:4913000-4917000	Enhancers	Psoas Muscle	Psoas
33	chr6:4913000-4918600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
34	chr6:4913200-4915800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
35	chr6:4913200-4936000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr6:4913200-4941000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
37	chr6:4913400-4915200	Enhancers	Brain Anterior Caudate	brain
38	chr6:4913400-4915400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr6:4913400-4915600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr6:4913400-4917000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
41	chr6:4913600-4915200	Enhancers	Brain Substantia Nigra	brain
42	chr6:4913600-4915200	Enhancers	Sigmoid Colon	Sigmoid Colon
43	chr6:4913600-4915800	Enhancers	Brain Hippocampus Middle	brain
44	chr6:4913600-4915800	Enhancers	Stomach Mucosa	stomach
45	chr6:4913600-4916400	Enhancers	Fetal Lung	lung
46	chr6:4913600-4919200	Enhancers	Primary T cells from cord blood	blood
47	chr6:4913600-4938000	Weak transcription	Primary B cells from peripheral blood	blood
48	chr6:4913800-4915200	Enhancers	Brain Cingulate Gyrus	brain
49	chr6:4913800-4915400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
50	chr6:4913800-4915600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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