Variant report

Variant	rs56390641
Chromosome Location	chr15:41024192-41024193
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:40919306..40921554-chr15:41023722..41025416,2	MCF-7	breast:
2	chr15:41020377..41022175-chr15:41023409..41025254,2	K562	blood:

Variant related genes	Relation type
ENSG00000137812	Chromatin interaction
ENSG00000051180	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs11070287	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12050702	0.84[ASN][1000 genomes]
rs7177590	0.84[ASN][1000 genomes]
rs7180036	0.89[ASN][1000 genomes]
rs73398512	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8042758	0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1053173	chr15:40933163-41094127	Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	nsv542363	chr15:40933163-41094127	Flanking Active TSS Enhancers Weak transcription Genic enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
3	nsv904099	chr15:40949526-41041875	Genic enhancers Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
4	nsv904101	chr15:40979651-41275014	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
5	nsv527234	chr15:40987725-41031686	Transcr. at gene 5' and 3' Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
6	esv1819092	chr15:41017682-41255750	Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	83 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:40988000-41030000	Weak transcription	Pancreas	Pancrea
2	chr15:40988200-41028600	Weak transcription	Spleen	Spleen
3	chr15:40988400-41027200	Weak transcription	Primary B cells from cord blood	blood
4	chr15:40988400-41031000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr15:40993200-41025800	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr15:40998800-41038000	Weak transcription	Stomach Mucosa	stomach
7	chr15:40999000-41027600	Weak transcription	Gastric	stomach
8	chr15:41000000-41026000	Weak transcription	Sigmoid Colon	Sigmoid Colon
9	chr15:41008200-41046600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr15:41012800-41028200	Weak transcription	NHLF	lung
11	chr15:41014600-41029600	Weak transcription	Esophagus	oesophagus
12	chr15:41016600-41027400	Weak transcription	Brain Cingulate Gyrus	brain
13	chr15:41018800-41024800	Weak transcription	Primary B cells from peripheral blood	blood
14	chr15:41019200-41035600	Weak transcription	Fetal Heart	heart
15	chr15:41019400-41024600	Weak transcription	Skeletal Muscle Male	skeletal muscle
16	chr15:41019400-41028600	Weak transcription	Fetal Brain Male	brain
17	chr15:41019400-41036000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr15:41019400-41046200	Strong transcription	Fetal Stomach	stomach
19	chr15:41019600-41024600	Strong transcription	Primary hematopoietic stem cells	blood
20	chr15:41019600-41027000	Weak transcription	Small Intestine	intestine
21	chr15:41019600-41036200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr15:41019600-41036200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr15:41020000-41026200	Weak transcription	Lung	lung
24	chr15:41020000-41027800	Weak transcription	Psoas Muscle	Psoas
25	chr15:41020000-41029800	Strong transcription	H1 Cell Line	embryonic stem cell
26	chr15:41020000-41036000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
27	chr15:41020000-41043600	Strong transcription	Dnd41	blood
28	chr15:41020200-41027800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
29	chr15:41020200-41030600	Strong transcription	HUES6 Cell Line	embryonic stem cell
30	chr15:41020400-41026000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
31	chr15:41020400-41026600	Weak transcription	Brain Anterior Caudate	brain
32	chr15:41020400-41027200	Weak transcription	Brain Hippocampus Middle	brain
33	chr15:41020400-41027600	Weak transcription	Left Ventricle	heart
34	chr15:41020400-41027800	Weak transcription	Colon Smooth Muscle	Colon
35	chr15:41020400-41028000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
36	chr15:41020400-41028200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
37	chr15:41020400-41028200	Weak transcription	Rectal Smooth Muscle	rectum
38	chr15:41020400-41035600	Strong transcription	K562	blood
39	chr15:41020400-41035800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr15:41020400-41036000	Strong transcription	Fetal Thymus	thymus
41	chr15:41020400-41037600	Strong transcription	Monocytes-CD14+_RO01746	blood
42	chr15:41020600-41024200	Strong transcription	Primary T cells from cord blood	blood
43	chr15:41020600-41029600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
44	chr15:41020600-41030800	Strong transcription	HUES48 Cell Line	embryonic stem cell
45	chr15:41020600-41030800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
46	chr15:41020600-41033600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
47	chr15:41020600-41036000	Strong transcription	Placenta	Placenta
48	chr15:41020600-41036800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
49	chr15:41020600-41037800	Strong transcription	Primary monocytes fromperipheralblood	blood
50	chr15:41020600-41038200	Strong transcription	Primary neutrophils fromperipheralblood	blood

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