Variant report

Variant	rs62029247
Chromosome Location	chr15:77180079-77180080
allele	A/C
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	FOXA1	chr15:77179710-77180240	HepG2	liver:	n/a	n/a
2	HEY1	chr15:77180037-77180262	HepG2	liver:	n/a	n/a
3	FOXA1	chr15:77179721-77180247	HepG2	liver:	n/a	n/a
4	POLR2A	chr15:77179948-77180225	HepG2	liver:	n/a	n/a
5	FOXA1	chr15:77179671-77180384	HepG2	liver:	n/a	n/a
6	POLR2A	chr15:77180012-77180210	HepG2	liver:	n/a	n/a
7	POLR2A	chr15:77180055-77180201	HepG2	liver:	n/a	n/a
8	FOXA1	chr15:77179651-77180295	HepG2	liver:	n/a	n/a
9	MAFK	chr15:77179889-77180468	HepG2	liver:	n/a	n/a
10	MAFF	chr15:77180022-77180311	HepG2	liver:	n/a	n/a

Variant related genes	Relation type
SCAPER	TF binding region

Extended variants
information (count: 97 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:88)

rs_ID	r²[population]
rs10519151	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs16968467	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs16968532	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs16968536	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs16968557	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2137309	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2221866	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2277891	0.89[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs280025	0.92[ASN][1000 genomes]
rs3825892	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs56116678	0.89[AMR][1000 genomes]
rs58908956	0.92[ASN][1000 genomes]
rs59570104	0.89[AMR][1000 genomes]
rs59897136	0.89[AMR][1000 genomes]
rs60963081	0.89[AMR][1000 genomes]
rs62026902	0.89[AMR][1000 genomes]
rs62026904	0.89[AMR][1000 genomes]
rs62027262	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62027263	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62027268	0.98[EUR][1000 genomes]
rs62027269	0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62027270	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62027271	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62027272	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62027273	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62027274	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62027276	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62027279	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62028170	0.89[AMR][1000 genomes]
rs62028171	0.89[AMR][1000 genomes]
rs62028172	0.89[AMR][1000 genomes]
rs62028173	0.89[AMR][1000 genomes]
rs62028174	0.89[AMR][1000 genomes]
rs62028177	0.89[AMR][1000 genomes]
rs62028193	0.83[AMR][1000 genomes]
rs62028724	0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62028726	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62028727	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62028729	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62028730	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62028733	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62028734	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62028735	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62028737	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62028740	0.84[AMR][1000 genomes]
rs62028741	0.84[AMR][1000 genomes]
rs62028743	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62029174	0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62029175	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62029178	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62029179	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62029180	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62029182	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62029183	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62029184	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62029186	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62029187	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62029188	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62029189	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62029190	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62029192	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62029194	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62029195	0.92[AFR][1000 genomes];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62029196	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62029197	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62029230	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62029231	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62029233	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62029234	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62029235	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62029236	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62029237	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62029239	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62029240	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62029241	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62029245	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62029248	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62029249	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62029250	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7164654	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7171104	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7179043	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73455381	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73457158	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73457161	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8034637	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8042889	0.89[AMR][1000 genomes]
rs8043385	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv542439	chr15:76762161-77196336	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	9 gene(s)	inside rSNPs	diseases
2	esv3440794	chr15:76764595-77571114	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
3	nsv1046137	chr15:76892097-77196336	ZNF genes & repeats Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv542442	chr15:76892097-77196336	ZNF genes & repeats Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	esv3367577	chr15:77015618-77442634	Genic enhancers Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
6	esv1803942	chr15:77151005-77210457	Active TSS Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS 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	5 gene(s)	inside rSNPs	diseases
7	nsv1040852	chr15:77160237-78137541	Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
8	esv2758388	chr15:77170550-77373448	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
9	esv2760041	chr15:77170550-77373448	Enhancers Genic enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:53 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:77112200-77196000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr15:77133200-77196800	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr15:77140800-77195800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr15:77142000-77195800	Weak transcription	Right Ventricle	heart
5	chr15:77146400-77196400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr15:77148600-77195600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
7	chr15:77148800-77181000	Weak transcription	Fetal Kidney	kidney
8	chr15:77148800-77195600	Weak transcription	Dnd41	blood
9	chr15:77158600-77180600	Weak transcription	Primary T helper cells PMA-I stimulated	--
10	chr15:77158600-77190800	Weak transcription	Brain Cingulate Gyrus	brain
11	chr15:77158800-77195600	Weak transcription	Brain Hippocampus Middle	brain
12	chr15:77158800-77195600	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr15:77161400-77188800	Weak transcription	Fetal Heart	heart
14	chr15:77168400-77195000	Weak transcription	Adipose Nuclei	Adipose
15	chr15:77168600-77180800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
16	chr15:77168600-77181600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr15:77168600-77195000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr15:77168600-77195600	Weak transcription	Colon Smooth Muscle	Colon
19	chr15:77168600-77196800	Weak transcription	Pancreas	Pancrea
20	chr15:77168600-77196800	Weak transcription	Spleen	Spleen
21	chr15:77170200-77190600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr15:77172200-77182400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr15:77172800-77195600	Weak transcription	HSMM	muscle
24	chr15:77173800-77183600	Weak transcription	Primary T cells from cord blood	blood
25	chr15:77175600-77196800	Weak transcription	Aorta	Aorta
26	chr15:77175600-77196800	Weak transcription	Fetal Muscle Trunk	muscle
27	chr15:77175800-77195600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
28	chr15:77176000-77190800	Weak transcription	Fetal Intestine Large	intestine
29	chr15:77176000-77191000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
30	chr15:77176000-77192800	Weak transcription	Liver	Liver
31	chr15:77176000-77192800	Weak transcription	Left Ventricle	heart
32	chr15:77176000-77195800	Weak transcription	Primary T cells fromperipheralblood	blood
33	chr15:77176000-77196800	Weak transcription	Ovary	ovary
34	chr15:77176200-77180200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
35	chr15:77176200-77180200	Weak transcription	Monocytes-CD14+_RO01746	blood
36	chr15:77176200-77190800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
37	chr15:77176200-77195400	Weak transcription	Primary B cells from cord blood	blood
38	chr15:77176200-77195800	Weak transcription	Primary B cells from peripheral blood	blood
39	chr15:77176400-77183800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
40	chr15:77176400-77195600	Weak transcription	Primary T helper cells fromperipheralblood	blood
41	chr15:77178200-77185400	Weak transcription	Right Atrium	heart
42	chr15:77179000-77180200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
43	chr15:77179200-77180200	ZNF genes & repeats	Fetal Intestine Small	intestine
44	chr15:77179400-77196000	Weak transcription	Thymus	Thymus
45	chr15:77179600-77180200	ZNF genes & repeats	Fetal Stomach	stomach
46	chr15:77179800-77181200	Weak transcription	Fetal Brain Female	brain
47	chr15:77179800-77186400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr15:77179800-77195600	Weak transcription	Duodenum Mucosa	Duodenum
49	chr15:77180000-77180200	Weak transcription	Primary hematopoietic stem cells	blood
50	chr15:77180000-77180200	Enhancers	Esophagus	oesophagus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links