Variant report

Variant	rs12441204
Chromosome Location	chr15:35260949-35260950
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:3)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:3 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr15:35260879-35261015	MCF10A-Er-Src	breast:	n/a	n/a
2	SREBP2	chr15:35260747-35262497	GM12878	blood:	n/a	n/a
3	WRNIP1	chr15:35260845-35262177	GM12878	blood:	n/a	n/a

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:35256436..35258004-chr15:35259347..35262190,2	MCF-7	breast:
2	chr15:35260390..35263299-chr15:35270062..35272008,3	K562	blood:
3	chr15:35252626..35258121-chr15:35259367..35263228,9	K562	blood:
4	chr15:35255428..35258097-chr15:35259367..35262801,3	K562	blood:
5	chr15:35259687..35263562-chr15:35278927..35282925,7	K562	blood:
6	chr15:35260342..35263784-chr15:35278927..35282487,7	K562	blood:
7	chr15:35219148..35220809-chr15:35259856..35261653,2	K562	blood:
8	chr15:35260390..35261999-chr15:35270459..35271963,2	K562	blood:
9	chr15:34330030..34332710-chr15:35259474..35262090,2	MCF-7	breast:

No data

Variant related genes	Relation type
AQR	TF binding region
ENSG00000021776	Chromatin interaction
ENSG00000198146	Chromatin interaction
ENSG00000212768	Chromatin interaction
ENSG00000169857	Chromatin interaction

Extended variants
information (count: 57 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs11073076	0.81[CEU][hapmap];0.91[CHB][hapmap];0.88[JPT][hapmap];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11635485	0.82[CHB][hapmap];0.82[ASN][1000 genomes]
rs11636350	0.86[CHB][hapmap];0.82[ASN][1000 genomes]
rs11855784	0.81[CHB][hapmap]
rs12439825	0.86[CHB][hapmap];0.84[CHD][hapmap]
rs12442905	0.91[CHB][hapmap];0.84[CHD][hapmap];0.83[JPT][hapmap]
rs12591197	0.83[ASN][1000 genomes]
rs12593603	0.81[ASN][1000 genomes]
rs12593818	0.86[CHB][hapmap]
rs12708534	0.83[ASN][1000 genomes]
rs12901394	0.81[ASN][1000 genomes]
rs12901466	0.81[ASN][1000 genomes]
rs12901794	0.82[ASN][1000 genomes]
rs12901991	0.82[CHB][hapmap]
rs12917386	0.82[CHB][hapmap]
rs16959966	0.82[CHB][hapmap];0.84[CHD][hapmap];0.82[GIH][hapmap];0.86[MEX][hapmap]
rs2060809	0.81[CEU][hapmap];0.91[CHB][hapmap];0.84[CHD][hapmap];0.87[GIH][hapmap];0.88[JPT][hapmap];0.90[TSI][hapmap];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2060810	0.81[CHB][hapmap];0.82[CHD][hapmap];0.82[ASN][1000 genomes]
rs2060811	0.91[CHB][hapmap];0.88[JPT][hapmap];0.85[ASN][1000 genomes]
rs2060812	0.81[CEU][hapmap];0.87[CHB][hapmap];0.81[JPT][hapmap];0.82[ASN][1000 genomes]
rs2305411	0.86[CHB][hapmap];0.82[ASN][1000 genomes]
rs28498500	0.81[ASN][1000 genomes]
rs36067547	0.82[ASN][1000 genomes]
rs3743121	0.81[CHB][hapmap]
rs3848167	0.82[CHB][hapmap]
rs4513050	0.91[CHB][hapmap];0.86[CHD][hapmap];0.88[JPT][hapmap];0.84[ASN][1000 genomes]
rs4569214	0.82[CHB][hapmap]
rs4923845	0.86[CHB][hapmap];0.82[ASN][1000 genomes]
rs4923849	0.84[CHD][hapmap]
rs4924325	0.82[CHB][hapmap]
rs57271236	0.88[ASN][1000 genomes]
rs6495719	1.00[ASW][hapmap];0.90[LWK][hapmap];0.88[MKK][hapmap]
rs6495724	0.82[CHB][hapmap]
rs6495728	0.82[ASN][1000 genomes]
rs6495729	0.86[CHB][hapmap];0.82[ASN][1000 genomes]
rs6495730	0.80[CEU][hapmap];0.91[CHB][hapmap];0.88[JPT][hapmap];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7164151	0.86[CHB][hapmap];0.84[CHD][hapmap]
rs7164169	0.81[CEU][hapmap];0.91[CHB][hapmap];0.84[CHD][hapmap];0.87[GIH][hapmap];0.88[JPT][hapmap];0.90[TSI][hapmap];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7164266	0.81[CEU][hapmap];0.91[CHB][hapmap];0.84[CHD][hapmap];0.87[GIH][hapmap];0.88[JPT][hapmap];0.90[TSI][hapmap];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7164977	0.82[CHB][hapmap]
rs7170280	0.81[ASN][1000 genomes]
rs7177337	0.85[ASN][1000 genomes]
rs7177962	0.82[CHB][hapmap]
rs7179205	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7179833	0.91[CHB][hapmap];0.84[CHD][hapmap];0.88[JPT][hapmap];0.84[ASN][1000 genomes]
rs7181836	0.84[ASN][1000 genomes]
rs7182356	0.91[CHB][hapmap];0.84[CHD][hapmap];0.88[JPT][hapmap];0.84[ASN][1000 genomes]
rs8025770	0.82[CHB][hapmap]
rs8031861	0.82[ASN][1000 genomes]
rs8037610	0.91[CHB][hapmap];0.88[JPT][hapmap];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs8039183	1.00[ASW][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs959478	0.82[CHB][hapmap]
rs9920529	0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3350109	chr15:34668106-35534229	Strong transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv522411	chr15:34953986-35462981	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
3	esv2761865	chr15:35101678-35271639	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	nsv832967	chr15:35110102-35267906	Strong transcription Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Genic enhancers Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12441204	ZNF770	cis	brain	BrainEAC

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:35198800-35261200	Weak transcription	Esophagus	oesophagus
2	chr15:35229400-35261000	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr15:35240000-35261000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr15:35243200-35261200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr15:35252200-35261000	Weak transcription	Aorta	Aorta
6	chr15:35258600-35261000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
7	chr15:35259400-35261000	Enhancers	Primary neutrophils fromperipheralblood	blood
8	chr15:35259600-35261000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
9	chr15:35260000-35261000	Enhancers	Primary T cells fromperipheralblood	blood
10	chr15:35260000-35261000	Enhancers	Primary hematopoietic stem cells	blood
11	chr15:35260000-35261200	Enhancers	Primary monocytes fromperipheralblood	blood
12	chr15:35260000-35261200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
13	chr15:35260000-35261200	Enhancers	Gastric	stomach
14	chr15:35260000-35261200	Enhancers	Spleen	Spleen
15	chr15:35260200-35261000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr15:35260200-35261000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr15:35260200-35261000	Enhancers	Primary B cells from peripheral blood	blood
18	chr15:35260200-35261000	Enhancers	Stomach Mucosa	stomach
19	chr15:35260200-35261200	Enhancers	Pancreas	Pancrea
20	chr15:35260200-35261200	Enhancers	Sigmoid Colon	Sigmoid Colon
21	chr15:35260200-35261200	Enhancers	Small Intestine	intestine
22	chr15:35260200-35261400	Flanking Active TSS	Dnd41	blood
23	chr15:35260200-35262600	Active TSS	iPS-15b Cell Line	embryonic stem cell
24	chr15:35260400-35261200	Weak transcription	Lung	lung
25	chr15:35260400-35261400	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr15:35260600-35261000	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr15:35260600-35261000	Enhancers	Fetal Heart	heart
28	chr15:35260600-35261000	Flanking Active TSS	HepG2	liver
29	chr15:35260600-35261200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr15:35260600-35261200	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
31	chr15:35260600-35261200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr15:35260600-35261400	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
33	chr15:35260600-35261400	Flanking Active TSS	HMEC	breast
34	chr15:35260600-35261600	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
35	chr15:35260600-35261600	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
36	chr15:35260600-35261800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr15:35260600-35262400	Active TSS	HSMM	muscle
38	chr15:35260600-35262600	Active TSS	ES-I3 Cell Line	embryonic stem cell
39	chr15:35260600-35262600	Active TSS	HUES64 Cell Line	embryonic stem cell
40	chr15:35260800-35261000	Flanking Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
41	chr15:35260800-35261000	Flanking Active TSS	H9 Cell Line	embryonic stem cell
42	chr15:35260800-35261000	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr15:35260800-35261000	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
44	chr15:35260800-35261000	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
45	chr15:35260800-35261000	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
46	chr15:35260800-35261000	Flanking Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
47	chr15:35260800-35261000	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
48	chr15:35260800-35261000	Flanking Active TSS	Fetal Intestine Large	intestine
49	chr15:35260800-35261000	Flanking Active TSS	Fetal Intestine Small	intestine
50	chr15:35260800-35261000	Flanking Active TSS	Ovary	ovary

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