Variant report

Variant	rs2932208
Chromosome Location	chr15:57846706-57846707
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:57841937..57843856-chr15:57845649..57847200,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CGNL1-3	chr15:57846153-57847878	NONHSAT044077

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

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

rs_ID	r²[population]
rs11856	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12439291	0.81[CEU][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12439292	0.86[CEU][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1620315	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs1620402	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs1623697	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs1626448	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1630903	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1666572	0.95[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1666573	0.90[CEU][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1690316	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1690317	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1690318	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17820431	0.81[CEU][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17820437	0.81[CEU][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17820449	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17820461	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17820467	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1908189	0.95[ASN][1000 genomes]
rs1908191	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1908192	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2131730	0.90[CEU][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2131731	0.90[CEU][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2131733	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2270487	0.99[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2635389	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2922231	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2922232	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2932209	1.00[AFR][1000 genomes];1.00[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	0.86[CEU][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3742964	0.80[CEU][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4774960	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs4774961	0.91[CEU][hapmap];0.90[EUR][1000 genomes]
rs4774962	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs55916627	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs55952634	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs56362917	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs59368768	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs66802357	0.85[AMR][1000 genomes]
rs67336499	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7166305	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7171360	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs8038795	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs937248	0.90[CEU][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9744909	0.84[AFR][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:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57837800-57853000	Weak transcription	Colon Smooth Muscle	Colon
2	chr15:57839800-57847800	Enhancers	Fetal Intestine Large	intestine
3	chr15:57840600-57847400	Enhancers	Placenta Amnion	Placenta Amnion
4	chr15:57840800-57848000	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr15:57840800-57849400	Enhancers	Fetal Muscle Leg	muscle
6	chr15:57841000-57847800	Enhancers	Right Atrium	heart
7	chr15:57841000-57848000	Enhancers	Breast Myoepithelial Primary Cells	Breast
8	chr15:57841000-57848600	Enhancers	HSMMtube	muscle
9	chr15:57841200-57847600	Enhancers	Left Ventricle	heart
10	chr15:57841800-57847200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr15:57842000-57847800	Enhancers	Fetal Intestine Small	intestine
12	chr15:57842800-57847600	Enhancers	HMEC	breast
13	chr15:57842800-57848600	Enhancers	Skeletal Muscle Male	skeletal muscle
14	chr15:57843000-57846800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr15:57843000-57847400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr15:57843000-57847600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr15:57843000-57847600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr15:57843000-57847600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
19	chr15:57843000-57847800	Enhancers	Gastric	stomach
20	chr15:57843000-57848400	Enhancers	Placenta	Placenta
21	chr15:57843000-57848600	Enhancers	Fetal Lung	lung
22	chr15:57843200-57847600	Enhancers	Lung	lung
23	chr15:57843400-57847000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
24	chr15:57843400-57847200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr15:57843400-57847600	Enhancers	ES-I3 Cell Line	embryonic stem cell
26	chr15:57843400-57847600	Enhancers	Pancreas	Pancrea
27	chr15:57843400-57847800	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr15:57843800-57847400	Weak transcription	Psoas Muscle	Psoas
29	chr15:57844200-57848800	Enhancers	Fetal Heart	heart
30	chr15:57844400-57847600	Genic enhancers	Liver	Liver
31	chr15:57844600-57847000	Enhancers	HUVEC	blood vessel
32	chr15:57844600-57847400	Weak transcription	Spleen	Spleen
33	chr15:57844600-57847600	Enhancers	Right Ventricle	heart
34	chr15:57844600-57847800	Enhancers	HUES6 Cell Line	embryonic stem cell
35	chr15:57844600-57852200	Weak transcription	HepG2	liver
36	chr15:57844600-57859000	Weak transcription	H9 Cell Line	embryonic stem cell
37	chr15:57844800-57848600	Enhancers	Hela-S3	cervix
38	chr15:57844800-57857400	Weak transcription	HUES48 Cell Line	embryonic stem cell
39	chr15:57845200-57846800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
40	chr15:57845200-57847800	Enhancers	Brain Anterior Caudate	brain
41	chr15:57845200-57847800	Enhancers	Skeletal Muscle Female	skeletal muscle
42	chr15:57845200-57852400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr15:57845200-57857600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
44	chr15:57845400-57848000	Enhancers	Brain Hippocampus Middle	brain
45	chr15:57845400-57848600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
46	chr15:57845800-57847000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
47	chr15:57845800-57847600	Enhancers	Brain Cingulate Gyrus	brain
48	chr15:57845800-57847800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr15:57845800-57847800	Enhancers	HUES64 Cell Line	embryonic stem cell
50	chr15:57845800-57847800	Enhancers	Cortex derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links