Variant report

Variant	rs6933841
Chromosome Location	chr6:150393683-150393684
allele	A/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	MAX	chr6:150393230-150393967	HCT-116	colon:	n/a	chr6:150393475-150393485 chr6:150393774-150393783
2	TCF12	chr6:150393260-150393865	ECC-1	luminal epithelium:	n/a	n/a
3	YY1	chr6:150393389-150393700	HCT-116	colon:	n/a	n/a
4	FOSL1	chr6:150393378-150393692	K562	blood:	n/a	chr6:150393520-150393532 chr6:150393521-150393530 chr6:150393520-150393531
5	HMGN3	chr6:150393396-150393745	K562	blood:	n/a	chr6:150393520-150393529
6	MAX	chr6:150393278-150393771	K562	blood:	n/a	chr6:150393475-150393485
7	E2F4	chr6:150393439-150393739	MCF10A-Er-Src	breast:	n/a	n/a
8	JUN	chr6:150393340-150393716	K562	blood:	n/a	chr6:150393520-150393532 chr6:150393521-150393530
9	FOSL2	chr6:150393272-150393730	HepG2	liver:	n/a	chr6:150393520-150393532 chr6:150393521-150393530
10	NR2F2	chr6:150393215-150393811	K562	blood:	n/a	n/a
11	CHD2	chr6:150393394-150393724	Hela-S3	cervix:	n/a	n/a
12	JUND	chr6:150393401-150393715	HepG2	liver:	n/a	chr6:150393520-150393532 chr6:150393521-150393530 chr6:150393520-150393531
13	POLR2A	chr6:150393363-150393820	HCT-116	colon:	n/a	n/a
14	E2F6	chr6:150393419-150393743	K562	blood:	n/a	n/a
15	CCNT2	chr6:150393445-150393693	K562	blood:	n/a	n/a
16	POLR2A	chr6:150393268-150393774	HCT-116	colon:	n/a	n/a
17	MAX	chr6:150393275-150393817	MCF-7	breast:	n/a	chr6:150393475-150393485 chr6:150393774-150393783
18	MXI1	chr6:150393372-150393731	Hela-S3	cervix:	n/a	n/a
19	SMC3	chr6:150393368-150393705	Hela-S3	cervix:	n/a	n/a
20	ELF1	chr6:150393232-150393802	MCF-7	breast:	n/a	chr6:150393444-150393457
21	RFX5	chr6:150393394-150393686	Hela-S3	cervix:	n/a	n/a
22	GABPA	chr6:150393406-150393771	K562	blood:	n/a	chr6:150393475-150393484
23	JUND	chr6:150393349-150393696	Hela-S3	cervix:	n/a	chr6:150393520-150393532 chr6:150393521-150393530 chr6:150393520-150393531
24	SP1	chr6:150393117-150394028	HCT-116	colon:	n/a	chr6:150393700-150393710 chr6:150393663-150393672 chr6:150393474-150393486 chr6:150393471-150393485 chr6:150393475-150393485 chr6:150393662-150393671 chr6:150393475-150393485 chr6:150393663-150393672 chr6:150393475-150393484 chr6:150393662-150393672 chr6:150393476-150393485 chr6:150393474-150393486
25	FOSL2	chr6:150393284-150393716	A549	lung:	n/a	chr6:150393520-150393532 chr6:150393521-150393530
26	JUND	chr6:150393247-150393909	HCT-116	colon:	n/a	chr6:150393520-150393532 chr6:150393521-150393530 chr6:150393520-150393531
27	ATF3	chr6:150393282-150393683	K562	blood:	n/a	n/a
28	RCOR1	chr6:150393395-150393698	Hela-S3	cervix:	n/a	n/a
29	EBF1	chr6:150393442-150393689	GM12878	blood:	n/a	n/a
30	FOSL1	chr6:150393272-150393861	HCT-116	colon:	n/a	chr6:150393520-150393532 chr6:150393521-150393530 chr6:150393520-150393531
31	JUN	chr6:150393213-150394062	K562	blood:	n/a	chr6:150393520-150393532 chr6:150393521-150393530
32	JUN	chr6:150393383-150393702	Hela-S3	cervix:	n/a	chr6:150393520-150393532 chr6:150393521-150393530
33	JUND	chr6:150393328-150393757	K562	blood:	n/a	chr6:150393520-150393532 chr6:150393521-150393530 chr6:150393520-150393531
34	RCOR1	chr6:150393336-150393684	K562	blood:	n/a	n/a
35	NFIC	chr6:150393251-150393764	ECC-1	luminal epithelium:	n/a	n/a
36	MAX	chr6:150393420-150393708	K562	blood:	n/a	chr6:150393475-150393485
37	FOSL1	chr6:150393258-150393902	HCT-116	colon:	n/a	chr6:150393520-150393532 chr6:150393521-150393530 chr6:150393520-150393531
38	MAZ	chr6:150393386-150393714	Hela-S3	cervix:	n/a	chr6:150393475-150393485
39	MAX	chr6:150393282-150393856	ECC-1	luminal epithelium:	n/a	chr6:150393475-150393485 chr6:150393774-150393783
40	MAX	chr6:150393324-150393709	Hela-S3	cervix:	n/a	chr6:150393475-150393485
41	FOS	chr6:150393374-150393705	MCF10A-Er-Src	breast:	n/a	chr6:150393520-150393532 chr6:150393521-150393530
42	TCF7L2	chr6:150393338-150393711	HCT-116	colon:	n/a	chr6:150393521-150393530
43	FOSL2	chr6:150393293-150393774	MCF-7	breast:	n/a	chr6:150393520-150393532 chr6:150393521-150393530
44	JUND	chr6:150393204-150393851	MCF-7	breast:	n/a	chr6:150393520-150393532 chr6:150393521-150393530 chr6:150393520-150393531
45	ELF1	chr6:150393297-150393694	K562	blood:	n/a	chr6:150393444-150393457
46	FOSL1	chr6:150393243-150393731	K562	blood:	n/a	chr6:150393520-150393532 chr6:150393521-150393530 chr6:150393520-150393531
47	FOSL2	chr6:150393404-150393709	SK-N-SH	brain:	n/a	chr6:150393520-150393532 chr6:150393521-150393530

Variant related genes	Relation type
ULBP3	TF binding region

Extended variants
information (count: 24 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs1853659	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2010440	0.91[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4038366	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4869814	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4870250	0.84[EUR][1000 genomes]
rs4870258	0.91[CEU][hapmap];1.00[CHB][hapmap];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4870272	0.81[EUR][1000 genomes]
rs599319	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs610025	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs610039	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs631796	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6557277	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6557278	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs669009	0.91[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6920662	0.81[EUR][1000 genomes]
rs6935471	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7747128	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs789830	0.81[EUR][1000 genomes]
rs9322241	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs945194	0.86[CHB][hapmap];0.82[JPT][hapmap];0.91[EUR][1000 genomes];0.88[ASN][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	nsv886764	chr6:150114745-150393683	Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv517022	chr6:150145001-150426272	Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Strong transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv886767	chr6:150335407-150400488	Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Weak transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv1026236	chr6:150360882-150408946	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6933841	TH1L	trans	cerebellum	SCAN

Chromatin state (count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:150390200-150394000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:150390400-150395400	Weak transcription	Spleen	Spleen
3	chr6:150390400-150397200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr6:150390600-150397200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr6:150390800-150393800	Enhancers	HMEC	breast
6	chr6:150390800-150394000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr6:150390800-150397000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr6:150390800-150397200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
9	chr6:150390800-150397400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
10	chr6:150390800-150400800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr6:150391000-150394000	Enhancers	Stomach Mucosa	stomach
12	chr6:150391000-150395200	Weak transcription	Fetal Brain Female	brain
13	chr6:150391000-150397200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr6:150391200-150410000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr6:150392000-150393800	Enhancers	Hela-S3	cervix
16	chr6:150392200-150393800	Enhancers	ES-I3 Cell Line	embryonic stem cell
17	chr6:150392200-150393800	Enhancers	K562	blood
18	chr6:150392200-150394000	Enhancers	Rectal Mucosa Donor 31	rectum
19	chr6:150392400-150393800	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
20	chr6:150392400-150393800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
21	chr6:150392400-150395800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr6:150392400-150395800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr6:150392400-150400600	Weak transcription	HUES6 Cell Line	embryonic stem cell
24	chr6:150392600-150393800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr6:150392600-150393800	Enhancers	Placenta	Placenta
26	chr6:150392600-150396200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
27	chr6:150392800-150396200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr6:150393000-150393800	Enhancers	NHEK	skin
29	chr6:150393200-150393800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr6:150393200-150393800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr6:150393200-150393800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
32	chr6:150393200-150393800	Enhancers	Muscle Satellite Cultured Cells	--
33	chr6:150393200-150393800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr6:150393200-150393800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
35	chr6:150393200-150393800	Enhancers	Fetal Intestine Small	intestine
36	chr6:150393200-150393800	Enhancers	A549	lung
37	chr6:150393200-150394000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
38	chr6:150393400-150393800	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr6:150393400-150393800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
40	chr6:150393400-150393800	Enhancers	Breast Myoepithelial Primary Cells	Breast
41	chr6:150393400-150393800	Enhancers	Primary hematopoietic stem cells short term culture	blood
42	chr6:150393400-150393800	Bivalent Enhancer	Adipose Nuclei	Adipose
43	chr6:150393400-150393800	Enhancers	Fetal Intestine Large	intestine
44	chr6:150393400-150393800	Bivalent Enhancer	Fetal Muscle Trunk	muscle
45	chr6:150393400-150393800	Enhancers	Fetal Muscle Leg	muscle
46	chr6:150393400-150393800	Enhancers	Lung	lung
47	chr6:150393400-150393800	Enhancers	Psoas Muscle	Psoas
48	chr6:150393400-150393800	Bivalent Enhancer	Skeletal Muscle Male	skeletal muscle
49	chr6:150393400-150393800	Enhancers	Skeletal Muscle Female	skeletal muscle
50	chr6:150393400-150393800	Enhancers	HSMM	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links