Variant report

Variant	rs6942371
Chromosome Location	chr6:107370421-107370422
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:107368755..107370505-chr6:107435275..107437481,3	K562	blood:

Variant related genes	Relation type
ENSG00000178409	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10046417	1.00[AMR][1000 genomes]
rs12333272	1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6568459	1.00[AMR][1000 genomes]
rs6904173	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6937626	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73519734	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73519759	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9486492	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9486501	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9486509	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1019898	chr6:107310094-107554445	Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv1020715	chr6:107313502-107527077	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
3	nsv1025321	chr6:107313502-107555957	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 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	chr6:107350200-107375000	Weak transcription	Brain Substantia Nigra	brain
2	chr6:107350200-107380600	Weak transcription	H1 Cell Line	embryonic stem cell
3	chr6:107350200-107382000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr6:107350200-107382000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr6:107350200-107382400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr6:107350200-107406800	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr6:107350400-107375200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr6:107350400-107390200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr6:107351000-107390800	Weak transcription	Esophagus	oesophagus
10	chr6:107351600-107371200	Weak transcription	Spleen	Spleen
11	chr6:107351800-107371600	Weak transcription	NH-A	brain
12	chr6:107352200-107373200	Weak transcription	Psoas Muscle	Psoas
13	chr6:107353800-107382000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
14	chr6:107354200-107374800	Weak transcription	HUVEC	blood vessel
15	chr6:107354400-107390400	Weak transcription	Right Ventricle	heart
16	chr6:107354600-107371400	Weak transcription	HMEC	breast
17	chr6:107354600-107376200	Weak transcription	NHDF-Ad	bronchial
18	chr6:107354600-107380800	Weak transcription	NHEK	skin
19	chr6:107360800-107373400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
20	chr6:107361800-107375800	Weak transcription	HSMM	muscle
21	chr6:107361800-107376400	Weak transcription	NHLF	lung
22	chr6:107361800-107382000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
23	chr6:107361800-107382200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr6:107361800-107382200	Weak transcription	HUES48 Cell Line	embryonic stem cell
25	chr6:107361800-107382400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
26	chr6:107361800-107382400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
27	chr6:107362000-107382200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
28	chr6:107362000-107386800	Weak transcription	Pancreas	Pancrea
29	chr6:107363800-107382600	Weak transcription	Small Intestine	intestine
30	chr6:107364000-107371600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
31	chr6:107364200-107371200	Weak transcription	Aorta	Aorta
32	chr6:107364200-107372400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
33	chr6:107364200-107373200	Strong transcription	Liver	Liver
34	chr6:107364200-107373200	Strong transcription	Fetal Intestine Large	intestine
35	chr6:107364200-107375400	Weak transcription	HSMMtube	muscle
36	chr6:107364200-107382200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
37	chr6:107365000-107382400	Weak transcription	H9 Cell Line	embryonic stem cell
38	chr6:107365400-107373200	Strong transcription	Primary B cells from peripheral blood	blood
39	chr6:107365400-107373200	Strong transcription	Sigmoid Colon	Sigmoid Colon
40	chr6:107365800-107390400	Weak transcription	Brain Cingulate Gyrus	brain
41	chr6:107366000-107371200	Weak transcription	Rectal Mucosa Donor 31	rectum
42	chr6:107366000-107371400	Weak transcription	HUES64 Cell Line	embryonic stem cell
43	chr6:107366000-107372000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
44	chr6:107366000-107374400	Weak transcription	Rectal Smooth Muscle	rectum
45	chr6:107366000-107380600	Weak transcription	HUES6 Cell Line	embryonic stem cell
46	chr6:107366000-107382200	Weak transcription	Primary B cells from cord blood	blood
47	chr6:107366200-107374400	Weak transcription	Colon Smooth Muscle	Colon
48	chr6:107366400-107371600	Weak transcription	Ovary	ovary
49	chr6:107367000-107371400	Strong transcription	Gastric	stomach
50	chr6:107367000-107373200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links