Variant report

Variant	rs16977197
Chromosome Location	chr15:57304684-57304685
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs12437713	1.00[ASN][1000 genomes]
rs1627661	0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1652749	0.85[AMR][1000 genomes]
rs1657921	0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1657951	0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16977148	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16977186	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16977194	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16977212	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16977230	0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16977237	0.85[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs16977248	0.85[AMR][1000 genomes]
rs17819634	0.92[AMR][1000 genomes]
rs2585080	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4454320	0.92[AMR][1000 genomes]
rs4774901	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4774904	0.92[AMR][1000 genomes]
rs4774907	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7174202	0.85[AMR][1000 genomes]
rs8037361	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs935095	0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1042486	chr15:57094598-57505992	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv542393	chr15:57115116-57341363	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
3	nsv1052052	chr15:57232111-57344561	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	nsv542394	chr15:57232111-57344561	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
5	nsv904251	chr15:57241970-57575916	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:62 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57269800-57304800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr15:57273000-57307200	Weak transcription	Fetal Intestine Small	intestine
3	chr15:57275400-57306200	Weak transcription	Duodenum Mucosa	Duodenum
4	chr15:57276200-57313400	Weak transcription	Primary T cells fromperipheralblood	blood
5	chr15:57277000-57313400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr15:57282000-57307400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr15:57282000-57315000	Weak transcription	Primary T helper cells fromperipheralblood	blood
8	chr15:57282200-57308400	Weak transcription	Thymus	Thymus
9	chr15:57282200-57311000	Weak transcription	K562	blood
10	chr15:57282200-57315200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr15:57282600-57306200	Weak transcription	HepG2	liver
12	chr15:57284200-57310800	Weak transcription	Fetal Muscle Trunk	muscle
13	chr15:57286000-57306200	Weak transcription	Fetal Intestine Large	intestine
14	chr15:57286000-57307400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr15:57286200-57307600	Weak transcription	Primary hematopoietic stem cells	blood
16	chr15:57286200-57307600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr15:57286200-57312000	Weak transcription	HSMM	muscle
18	chr15:57286200-57314800	Weak transcription	Dnd41	blood
19	chr15:57286400-57309400	Weak transcription	Fetal Lung	lung
20	chr15:57288800-57307400	Weak transcription	HMEC	breast
21	chr15:57289400-57308000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr15:57289600-57315200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr15:57289600-57315600	Weak transcription	Fetal Muscle Leg	muscle
24	chr15:57289800-57315600	Weak transcription	Primary B cells from cord blood	blood
25	chr15:57294200-57307400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr15:57294400-57311600	Weak transcription	GM12878-XiMat	blood
27	chr15:57295200-57313600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr15:57296000-57307600	Weak transcription	Brain Substantia Nigra	brain
29	chr15:57296000-57308800	Weak transcription	HUES64 Cell Line	embryonic stem cell
30	chr15:57296000-57308800	Weak transcription	Brain Hippocampus Middle	brain
31	chr15:57296200-57307400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr15:57296200-57307600	Weak transcription	A549	lung
33	chr15:57296200-57308000	Weak transcription	NH-A	brain
34	chr15:57296400-57309400	Weak transcription	NHDF-Ad	bronchial
35	chr15:57296400-57310200	Weak transcription	Muscle Satellite Cultured Cells	--
36	chr15:57296600-57313200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr15:57297200-57308000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr15:57297200-57316800	Weak transcription	Fetal Stomach	stomach
39	chr15:57297800-57307200	Weak transcription	Pancreas	Pancrea
40	chr15:57298200-57307600	Weak transcription	Gastric	stomach
41	chr15:57299000-57307600	Weak transcription	Ovary	ovary
42	chr15:57299200-57316000	Weak transcription	Right Ventricle	heart
43	chr15:57299200-57317200	Weak transcription	Esophagus	oesophagus
44	chr15:57300000-57308200	Weak transcription	Primary T helper cells PMA-I stimulated	--
45	chr15:57300200-57308000	Weak transcription	Primary T cells from cord blood	blood
46	chr15:57300200-57313800	Strong transcription	Fetal Thymus	thymus
47	chr15:57300400-57307400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
48	chr15:57300400-57308800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
49	chr15:57300800-57304800	Weak transcription	Right Atrium	heart
50	chr15:57301600-57307800	Weak transcription	Sigmoid Colon	Sigmoid Colon

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