Variant report

Variant	rs1908192
Chromosome Location	chr15:57843747-57843748
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:57837700..57840998-chr15:57842272..57845131,4	MCF-7	breast:
2	chr15:57841937..57843856-chr15:57845649..57847200,2	K562	blood:
3	chr15:57842103..57844129-chr15:57847997..57849787,2	K562	blood:
4	chr15:57842103..57844046-chr15:57847997..57849926,2	K562	blood:
5	chr15:57836929..57839560-chr15:57843156..57845372,2	K562	blood:

Variant related genes	Relation type
ENSG00000240874	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs11856	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12439291	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12439292	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1620315	0.97[ASN][1000 genomes]
rs1620402	0.95[ASN][1000 genomes]
rs1623697	0.95[ASN][1000 genomes]
rs1626448	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1630903	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1666572	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1666573	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1690316	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1690317	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1690318	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16977597	0.94[AFR][1000 genomes]
rs17820431	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17820437	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17820449	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17820461	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17820467	0.86[AMR][1000 genomes]
rs1908189	0.95[ASN][1000 genomes]
rs1908191	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2131730	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2131731	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2131733	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2270487	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2635389	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2922231	0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2922232	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2932208	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2932209	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2934418	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3742963	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3742964	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4774960	0.97[ASN][1000 genomes]
rs4774961	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4774962	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs55916627	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs55952634	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs56362917	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs59368768	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs66802357	0.87[AMR][1000 genomes]
rs67336499	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7166305	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7171360	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs8038795	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs937248	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1045611	chr15:57350965-58070807	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv1054547	chr15:57600488-57977659	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
3	nsv904255	chr15:57790436-57907574	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:79 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57802600-57846600	Weak transcription	Duodenum Smooth Muscle	Duodenum
2	chr15:57830000-57846400	Weak transcription	Brain Substantia Nigra	brain
3	chr15:57837800-57853000	Weak transcription	Colon Smooth Muscle	Colon
4	chr15:57839800-57847800	Enhancers	Fetal Intestine Large	intestine
5	chr15:57840000-57846600	Weak transcription	Ovary	ovary
6	chr15:57840400-57844600	Enhancers	Stomach Mucosa	stomach
7	chr15:57840600-57847400	Enhancers	Placenta Amnion	Placenta Amnion
8	chr15:57840800-57848000	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr15:57840800-57849400	Enhancers	Fetal Muscle Leg	muscle
10	chr15:57841000-57847800	Enhancers	Right Atrium	heart
11	chr15:57841000-57848000	Enhancers	Breast Myoepithelial Primary Cells	Breast
12	chr15:57841000-57848600	Enhancers	HSMMtube	muscle
13	chr15:57841200-57847600	Enhancers	Left Ventricle	heart
14	chr15:57841400-57843800	Enhancers	Psoas Muscle	Psoas
15	chr15:57841800-57847200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr15:57842000-57847800	Enhancers	Fetal Intestine Small	intestine
17	chr15:57842200-57843800	Enhancers	Stomach Smooth Muscle	stomach
18	chr15:57842400-57844200	Enhancers	HUVEC	blood vessel
19	chr15:57842400-57846000	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr15:57842600-57845200	Enhancers	Fetal Kidney	kidney
21	chr15:57842800-57843800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr15:57842800-57844000	Enhancers	Right Ventricle	heart
23	chr15:57842800-57845200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr15:57842800-57845400	Enhancers	Adipose Nuclei	Adipose
25	chr15:57842800-57847600	Enhancers	HMEC	breast
26	chr15:57842800-57848600	Enhancers	Skeletal Muscle Male	skeletal muscle
27	chr15:57843000-57845200	Enhancers	NH-A	brain
28	chr15:57843000-57846800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr15:57843000-57847400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr15:57843000-57847600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr15:57843000-57847600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr15:57843000-57847600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
33	chr15:57843000-57847800	Enhancers	Gastric	stomach
34	chr15:57843000-57848400	Enhancers	Placenta	Placenta
35	chr15:57843000-57848600	Enhancers	Fetal Lung	lung
36	chr15:57843200-57843800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
37	chr15:57843200-57844000	Enhancers	NHEK	skin
38	chr15:57843200-57844400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr15:57843200-57844400	Enhancers	Esophagus	oesophagus
40	chr15:57843200-57844600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr15:57843200-57844600	Genic enhancers	iPS-15b Cell Line	embryonic stem cell
42	chr15:57843200-57844600	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin
43	chr15:57843200-57844800	Enhancers	Muscle Satellite Cultured Cells	--
44	chr15:57843200-57845200	Genic enhancers	iPS-20b Cell Line	embryonic stem cell
45	chr15:57843200-57845200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
46	chr15:57843200-57845400	Enhancers	Fetal Muscle Trunk	muscle
47	chr15:57843200-57847600	Enhancers	Lung	lung
48	chr15:57843400-57843800	Genic enhancers	Fetal Stomach	stomach
49	chr15:57843400-57843800	Flanking Active TSS	HSMM	muscle
50	chr15:57843400-57844400	Strong transcription	Liver	Liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links