Variant report

Variant	rs7177362
Chromosome Location	chr15:55667799-55667800
allele	G/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	chr15:55667301-55667913	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:55664031..55666470-chr15:55667052..55669566,2	K562	blood:

Variant related genes	Relation type
MIR628	TF binding region
CCPG1	TF binding region
ENSG00000260916	Chromatin interaction
ENSG00000207964	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10450983	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10518810	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs11732	0.87[CEU][hapmap]
rs16953240	0.87[CEU][hapmap]
rs16976307	0.89[CEU][hapmap];0.81[EUR][1000 genomes]
rs16976314	0.87[CEU][hapmap]
rs28858773	0.82[AMR][1000 genomes]
rs3203152	0.89[CEU][hapmap];0.81[EUR][1000 genomes]
rs3743205	0.85[CEU][hapmap]
rs59562815	0.81[EUR][1000 genomes]
rs59742963	0.91[EUR][1000 genomes]
rs61139258	0.93[EUR][1000 genomes]
rs6493781	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs7162724	0.89[CEU][hapmap]
rs7168869	1.00[CEU][hapmap];0.88[YRI][hapmap];0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7168882	0.89[CEU][hapmap]
rs7169460	0.87[CEU][hapmap]
rs7170970	0.89[CEU][hapmap]
rs7171766	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7174313	0.88[AMR][1000 genomes]
rs7177113	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7177888	0.88[CEU][hapmap]
rs7181226	0.87[CEU][hapmap]
rs7181999	0.87[CEU][hapmap]
rs7183937	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73421623	0.96[EUR][1000 genomes]
rs8027135	0.87[CEU][hapmap]
rs8028482	0.87[CEU][hapmap]
rs8029077	0.88[CEU][hapmap]
rs8029258	0.89[CEU][hapmap]
rs8031507	0.87[CEU][hapmap]
rs8041044	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs8041885	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs8042642	0.82[CEU][hapmap]
rs8043415	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv917323	chr15:55290499-56041334	Genic enhancers Active TSS ZNF genes & repeats Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	nsv1043789	chr15:55400872-56092454	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
3	nsv1051046	chr15:55529291-55821973	Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
4	nsv1036173	chr15:55547689-55812194	Flanking Active TSS Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
5	nsv542391	chr15:55547689-55812194	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
6	nsv569523	chr15:55555602-55836704	Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
7	nsv1040917	chr15:55562940-55943942	Flanking Active TSS Weak transcription Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Enhancers Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
8	nsv531054	chr15:55571230-55914205	Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
9	nsv904243	chr15:55627528-55734158	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
10	nsv948522	chr15:55639867-56032099	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
11	nsv520799	chr15:55645661-55760522	Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Active TSS Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
12	nsv1041635	chr15:55658171-55943942	Enhancers Weak transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7177362	CCPG1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:55611800-55699400	Weak transcription	Colonic Mucosa	Colon
2	chr15:55612000-55671000	Weak transcription	Right Ventricle	heart
3	chr15:55612000-55671000	Weak transcription	Small Intestine	intestine
4	chr15:55612600-55675600	Weak transcription	Aorta	Aorta
5	chr15:55612800-55677600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr15:55630000-55695000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
7	chr15:55630400-55675600	Weak transcription	Rectal Smooth Muscle	rectum
8	chr15:55630600-55667800	Weak transcription	Colon Smooth Muscle	Colon
9	chr15:55630600-55668400	Weak transcription	Brain Substantia Nigra	brain
10	chr15:55630800-55683600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
11	chr15:55631000-55667800	Weak transcription	Brain Hippocampus Middle	brain
12	chr15:55631200-55674000	Weak transcription	Placenta	Placenta
13	chr15:55635800-55675200	Weak transcription	Fetal Brain Male	brain
14	chr15:55636600-55678200	Weak transcription	Fetal Thymus	thymus
15	chr15:55637000-55671400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr15:55637000-55699600	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr15:55637400-55680200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr15:55641000-55667800	Weak transcription	Spleen	Spleen
19	chr15:55641000-55668000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr15:55641000-55671600	Weak transcription	Thymus	Thymus
21	chr15:55645000-55667800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr15:55645000-55680800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr15:55645600-55681400	Weak transcription	Stomach Mucosa	stomach
24	chr15:55647800-55695400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
25	chr15:55648800-55675800	Weak transcription	Dnd41	blood
26	chr15:55649200-55681000	Weak transcription	HSMM	muscle
27	chr15:55649800-55695800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
28	chr15:55650800-55680800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr15:55651000-55675200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr15:55652800-55675800	Weak transcription	NHDF-Ad	bronchial
31	chr15:55653000-55667800	Weak transcription	Psoas Muscle	Psoas
32	chr15:55653000-55675200	Weak transcription	HUES6 Cell Line	embryonic stem cell
33	chr15:55659600-55672200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr15:55659600-55682000	Strong transcription	Primary neutrophils fromperipheralblood	blood
35	chr15:55660200-55672200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr15:55660400-55669600	Strong transcription	Primary T cells fromperipheralblood	blood
37	chr15:55660800-55668000	Weak transcription	Brain Cingulate Gyrus	brain
38	chr15:55661200-55671000	Weak transcription	Fetal Muscle Leg	muscle
39	chr15:55661200-55672000	Strong transcription	Primary T helper cells fromperipheralblood	blood
40	chr15:55661200-55680800	Weak transcription	NHLF	lung
41	chr15:55661400-55671000	Weak transcription	Gastric	stomach
42	chr15:55661400-55671400	Weak transcription	Fetal Muscle Trunk	muscle
43	chr15:55661600-55667800	Weak transcription	Fetal Intestine Large	intestine
44	chr15:55661800-55669400	Weak transcription	HUES64 Cell Line	embryonic stem cell
45	chr15:55662200-55681600	Weak transcription	Esophagus	oesophagus
46	chr15:55662400-55669800	Strong transcription	Brain Anterior Caudate	brain
47	chr15:55662600-55672200	Strong transcription	Duodenum Smooth Muscle	Duodenum
48	chr15:55662800-55674000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
49	chr15:55663400-55672000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
50	chr15:55664000-55675400	Weak transcription	Fetal Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links