Variant report

Variant	rs7938601
Chromosome Location	chr11:100555858-100555859
allele	C/T
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	FOS	chr11:100555233-100555887	MCF10A-Er-Src	breast:	n/a	chr11:100555644-100555655 chr11:100555663-100555674
2	JUND	chr11:100555274-100556056	HCT-116	colon:	n/a	n/a
3	SP1	chr11:100555270-100555969	HCT-116	colon:	n/a	n/a
4	CBX3	chr11:100555322-100555872	HCT-116	colon:	n/a	n/a
5	FOSL1	chr11:100555098-100556077	HCT-116	colon:	n/a	n/a
6	STAT3	chr11:100555471-100555864	MCF10A-Er-Src	breast:	n/a	n/a
7	FOSL1	chr11:100555231-100556010	HCT-116	colon:	n/a	n/a
8	POLR2A	chr11:100555751-100556086	H1-neurons	neurons:	n/a	n/a
9	SP1	chr11:100554991-100556200	HCT-116	colon:	n/a	n/a
10	FOS	chr11:100555284-100555964	HUVEC	blood vessel:	n/a	chr11:100555644-100555655 chr11:100555663-100555674
11	JUND	chr11:100555219-100555950	HCT-116	colon:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:100550243..100553633-chr11:100554741..100557125,4	K562	blood:

Variant related genes	Relation type
ARHGAP42	TF binding region

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10128687	0.80[ASN][1000 genomes]
rs10431108	0.87[ASN][1000 genomes]
rs10750593	0.82[ASN][1000 genomes]
rs10895001	0.82[ASN][1000 genomes]
rs10895003	0.82[ASN][1000 genomes]
rs10895004	0.81[ASN][1000 genomes]
rs10895005	0.83[ASN][1000 genomes]
rs10895009	0.85[ASN][1000 genomes]
rs11224372	0.81[ASN][1000 genomes]
rs11224403	0.85[ASN][1000 genomes]
rs1216743	0.92[ASN][1000 genomes]
rs12269905	0.93[ASN][1000 genomes]
rs12280935	0.83[EUR][1000 genomes]
rs12288075	0.93[ASN][1000 genomes]
rs1502284	0.85[ASN][1000 genomes]
rs1532710	0.82[ASN][1000 genomes]
rs17095329	0.81[ASN][1000 genomes]
rs1847149	0.86[ASN][1000 genomes]
rs1847150	0.86[ASN][1000 genomes]
rs2055449	0.98[ASN][1000 genomes]
rs2055450	0.99[ASN][1000 genomes]
rs2134301	0.82[ASN][1000 genomes]
rs2298609	0.87[ASN][1000 genomes]
rs4312035	0.99[ASN][1000 genomes]
rs4753980	0.84[AFR][1000 genomes];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4753984	0.80[ASN][1000 genomes]
rs4754692	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4754693	0.82[EUR][1000 genomes]
rs4754695	0.87[ASN][1000 genomes]
rs633185	0.80[ASN][1000 genomes]
rs653320	0.97[ASN][1000 genomes]
rs6590805	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6590810	0.87[ASN][1000 genomes]
rs6590811	0.86[ASN][1000 genomes]
rs6590812	0.84[ASN][1000 genomes]
rs6590813	0.85[ASN][1000 genomes]
rs6590814	0.83[ASN][1000 genomes]
rs670401	0.97[ASN][1000 genomes]
rs7103397	0.80[ASN][1000 genomes]
rs7105451	0.80[ASN][1000 genomes]
rs7106603	0.85[ASN][1000 genomes]
rs7112041	0.80[ASN][1000 genomes]
rs7114867	0.80[ASN][1000 genomes]
rs7130275	0.80[ASN][1000 genomes]
rs7926526	0.83[ASN][1000 genomes]
rs7928871	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7933402	0.80[ASN][1000 genomes]
rs7938194	0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7942556	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1053430	chr11:99888390-100629136	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1042067	chr11:99889697-100629136	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv556122	chr11:99893282-100585889	Flanking Active TSS Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1037689	chr11:99895378-100624599	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers 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
5	nsv1040942	chr11:99895378-100629136	Bivalent/Poised TSS Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	nsv1039852	chr11:99901695-100610533	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
7	nsv541152	chr11:99901695-100610533	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
8	nsv1045190	chr11:99913193-100627395	Active TSS Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
9	nsv541153	chr11:99913193-100627395	Flanking Active TSS Enhancers Genic enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
10	nsv529454	chr11:99913394-100627255	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
11	nsv520995	chr11:100163957-100681211	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
12	nsv530643	chr11:100196082-100713156	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
13	nsv1043022	chr11:100387466-100610533	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
14	nsv832246	chr11:100426725-100606957	Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:100547400-100556400	Weak transcription	Placenta	Placenta
2	chr11:100547600-100557600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr11:100548000-100557200	Weak transcription	K562	blood
4	chr11:100548800-100557000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr11:100551800-100557600	Weak transcription	Fetal Brain Male	brain
6	chr11:100552000-100556200	Weak transcription	Fetal Stomach	stomach
7	chr11:100552200-100557000	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr11:100552200-100557200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr11:100552200-100557200	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr11:100552200-100557200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr11:100552200-100557200	Weak transcription	Fetal Intestine Small	intestine
12	chr11:100552200-100557200	Weak transcription	Fetal Muscle Leg	muscle
13	chr11:100552200-100557400	Weak transcription	Fetal Brain Female	brain
14	chr11:100552200-100557600	Weak transcription	Skeletal Muscle Male	skeletal muscle
15	chr11:100552400-100557400	Weak transcription	Primary hematopoietic stem cells	blood
16	chr11:100552400-100557400	Weak transcription	Rectal Mucosa Donor 29	rectum
17	chr11:100552600-100556400	Enhancers	GM12878-XiMat	blood
18	chr11:100552600-100557400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
19	chr11:100552600-100557400	Weak transcription	Dnd41	blood
20	chr11:100553000-100556200	Enhancers	HepG2	liver
21	chr11:100553000-100557400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
22	chr11:100553400-100556400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr11:100553400-100556800	Enhancers	Liver	Liver
24	chr11:100553400-100557400	Weak transcription	Primary T cells from cord blood	blood
25	chr11:100553600-100556400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr11:100554200-100557200	Weak transcription	Brain Cingulate Gyrus	brain
27	chr11:100554200-100557400	Weak transcription	Right Atrium	heart
28	chr11:100554400-100556600	Enhancers	HMEC	breast
29	chr11:100554400-100556800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
30	chr11:100554600-100556000	Bivalent Enhancer	Fetal Lung	lung
31	chr11:100554600-100556400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr11:100554600-100557600	Enhancers	Primary B cells from cord blood	blood
33	chr11:100554800-100556600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr11:100554800-100556600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr11:100554800-100556600	Enhancers	Osteobl	bone
36	chr11:100554800-100556800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr11:100554800-100557600	Enhancers	Primary B cells from peripheral blood	blood
38	chr11:100555000-100556000	Enhancers	Brain Germinal Matrix	brain
39	chr11:100555000-100556800	Enhancers	NH-A	brain
40	chr11:100555000-100557200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
41	chr11:100555000-100557600	Enhancers	Muscle Satellite Cultured Cells	--
42	chr11:100555000-100557600	Enhancers	Colon Smooth Muscle	Colon
43	chr11:100555000-100557600	Enhancers	Stomach Mucosa	stomach
44	chr11:100555000-100557600	Enhancers	NHLF	lung
45	chr11:100555200-100556000	Flanking Active TSS	NHEK	skin
46	chr11:100555200-100557000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
47	chr11:100555200-100557400	Enhancers	Fetal Heart	heart
48	chr11:100555200-100557400	Enhancers	NHDF-Ad	bronchial
49	chr11:100555400-100556400	Enhancers	HSMM	muscle
50	chr11:100555400-100556800	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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