Variant report

Variant	rs4987885
Chromosome Location	chr11:108095836-108095837
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	POLR2A	chr11:108091677-108096659	GM12891	blood:	n/a	n/a
2	FOXM1	chr11:108095635-108096552	GM12878	blood:	n/a	n/a
3	IRF1	chr11:108095705-108096268	K562	blood:	n/a	chr11:108095904-108095921 chr11:108095908-108095922 chr11:108095907-108095920 chr11:108095907-108095918 chr11:108095906-108095926 chr11:108095902-108095919 chr11:108095907-108095921 chr11:108095907-108095920 chr11:108095906-108095917 chr11:108095907-108095920 chr11:108095906-108095920 chr11:108095908-108095918
4	FOXM1	chr11:108095802-108096685	GM12878	blood:	n/a	n/a
5	EP300	chr11:108095792-108096373	GM12878	blood:	n/a	chr11:108095994-108096008
6	ZNF384	chr11:108095664-108096368	GM12878	blood:	n/a	n/a
7	ATF2	chr11:108095702-108096635	GM12878	blood:	n/a	n/a
8	NFIC	chr11:108092529-108096479	GM12878	blood:	n/a	n/a
9	NFATC1	chr11:108095629-108096525	GM12878	blood:	n/a	n/a
10	RUNX3	chr11:108095750-108096487	GM12878	blood:	n/a	n/a
11	GATA1	chr11:108091332-108096023	PBDE	blood:	n/a	chr11:108091693-108091700 chr11:108094418-108094425 chr11:108094418-108094428 chr11:108095160-108095170 chr11:108094416-108094426 chr11:108094452-108094461 chr11:108094450-108094463 chr11:108094416-108094425 chr11:108095163-108095172 chr11:108095163-108095170 chr11:108094339-108094356 chr11:108091686-108091707 chr11:108095162-108095172 chr11:108091693-108091700 chr11:108094418-108094425 chr11:108091693-108091700 chr11:108094418-108094425
12	TBP	chr11:108095717-108096495	GM12878	blood:	n/a	n/a
13	ATF2	chr11:108095695-108096507	GM12878	blood:	n/a	n/a
14	RCOR1	chr11:108095806-108096135	GM12878	blood:	n/a	n/a
15	RFX5	chr11:108095644-108096153	GM12878	blood:	n/a	n/a
16	STAT5A	chr11:108095632-108096441	GM12878	blood:	n/a	chr11:108095808-108095816 chr11:108095802-108095822 chr11:108095807-108095816 chr11:108095802-108095822 chr11:108095761-108095768 chr11:108095808-108095817 chr11:108095907-108095918
17	IRF1	chr11:108095154-108096132	K562	blood:	n/a	chr11:108095904-108095921 chr11:108095908-108095922 chr11:108095907-108095920 chr11:108095907-108095918 chr11:108095906-108095926 chr11:108095902-108095919 chr11:108095907-108095921 chr11:108095907-108095920 chr11:108095906-108095917 chr11:108095907-108095920 chr11:108095906-108095920 chr11:108095908-108095918
18	NFIC	chr11:108095632-108096514	GM12878	blood:	n/a	n/a
19	NFATC1	chr11:108095516-108096701	GM12878	blood:	n/a	n/a
20	PML	chr11:108095607-108096460	GM12878	blood:	n/a	n/a
21	RUNX3	chr11:108095629-108096505	GM12878	blood:	n/a	n/a
22	NFYB	chr11:108095731-108096078	GM12878	blood:	n/a	chr11:108095888-108095901 chr11:108095887-108095901
23	POLR2A	chr11:108092499-108096276	GM12878	blood:	n/a	n/a
24	MXI1	chr11:108095649-108096518	GM12878	blood:	n/a	n/a
25	FOXA1	chr11:108095790-108096076	HepG2	liver:	n/a	chr11:108095916-108095931
26	BATF	chr11:108095719-108095972	GM12878	blood:	n/a	n/a
27	CHD1	chr11:108091767-108096271	GM12878	blood:	n/a	chr11:108093917-108093927 chr11:108093832-108093842 chr11:108093431-108093438
28	MTA3	chr11:108095448-108096631	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr11:108095113..108096885-chr11:108527340..108529884,2	K562	blood:
2	chr11:108089780..108091711-chr11:108095775..108097725,2	MCF-7	breast:
3	chr11:108070782..108073415-chr11:108095744..108098057,2	MCF-7	breast:

Variant related genes	Relation type
NPAT	TF binding region

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs3218695	1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs3218712	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs4987894	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4987895	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4987914	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4987921	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4987931	0.90[AFR][1000 genomes]
rs4987937	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4987979	1.00[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4988003	1.00[AMR][1000 genomes]
rs4988022	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4988038	1.00[AMR][1000 genomes]
rs4988062	1.00[AMR][1000 genomes]
rs4988073	1.00[AMR][1000 genomes]
rs4988091	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs4988102	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs56135055	1.00[AMR][1000 genomes]
rs61913704	0.90[AFR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv898383	chr11:108068954-108251211	Genic enhancers Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:108091000-108097400	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr11:108091200-108096200	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr11:108091800-108096200	Active TSS	Primary T cells fromperipheralblood	blood
4	chr11:108091800-108096200	Active TSS	Primary Natural Killer cells fromperipheralblood	blood
5	chr11:108091800-108097000	Active TSS	Primary T helper naive cells from peripheral blood	blood
6	chr11:108091800-108097000	Active TSS	Primary T killer naive cells fromperipheralblood	blood
7	chr11:108091800-108098200	Active TSS	Primary T killer memory cells from peripheral blood	blood
8	chr11:108092200-108097800	Active TSS	Thymus	Thymus
9	chr11:108092400-108096800	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr11:108093800-108096600	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
11	chr11:108094000-108098200	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
12	chr11:108094200-108096600	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
13	chr11:108094200-108097600	Flanking Active TSS	Primary B cells from cord blood	blood
14	chr11:108094200-108099000	Active TSS	Primary T helper naive cells fromperipheralblood	blood
15	chr11:108094400-108096000	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
16	chr11:108094400-108096000	Flanking Active TSS	Pancreatic Islets	Pancreatic Islet
17	chr11:108094400-108096600	Flanking Active TSS	K562	blood
18	chr11:108094400-108096600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
19	chr11:108094600-108096000	Flanking Active TSS	Primary B cells from peripheral blood	blood
20	chr11:108094600-108096200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr11:108094600-108096200	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
22	chr11:108094600-108096400	Weak transcription	Small Intestine	intestine
23	chr11:108094600-108121600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
24	chr11:108094800-108096200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr11:108094800-108096200	Weak transcription	Lung	lung
26	chr11:108094800-108096200	Flanking Active TSS	Dnd41	blood
27	chr11:108094800-108097200	Active TSS	Rectal Mucosa Donor 29	rectum
28	chr11:108094800-108100400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr11:108094800-108100400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
30	chr11:108094800-108116000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
31	chr11:108094800-108147400	Weak transcription	Esophagus	oesophagus
32	chr11:108094800-108244400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr11:108095000-108096200	Weak transcription	Stomach Mucosa	stomach
34	chr11:108095000-108096400	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr11:108095000-108100400	Weak transcription	Ovary	ovary
36	chr11:108095000-108121400	Weak transcription	Colonic Mucosa	Colon
37	chr11:108095200-108096000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
38	chr11:108095200-108096000	Enhancers	Cortex derived primary cultured neurospheres	brain
39	chr11:108095200-108096000	Enhancers	Rectal Mucosa Donor 31	rectum
40	chr11:108095200-108096000	Enhancers	NHEK	skin
41	chr11:108095200-108096200	Active TSS	Fetal Thymus	thymus
42	chr11:108095200-108096200	Weak transcription	Left Ventricle	heart
43	chr11:108095200-108096200	Weak transcription	Pancreas	Pancrea
44	chr11:108095200-108096200	Enhancers	Skeletal Muscle Male	skeletal muscle
45	chr11:108095200-108096400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
46	chr11:108095200-108096400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
47	chr11:108095200-108096400	Weak transcription	Fetal Muscle Trunk	muscle
48	chr11:108095200-108096600	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
49	chr11:108095200-108097000	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
50	chr11:108095200-108099000	Weak transcription	Fetal Intestine Large	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links