Variant report

Variant	rs7046682
Chromosome Location	chr9:97838148-97838149
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:97584438..97586291-chr9:97836319..97838508,2	MCF-7	breast:
2	chr9:97836720..97838496-chr9:97862659..97865053,2	MCF-7	breast:
3	chr9:97830414..97832862-chr9:97837020..97839088,2	K562	blood:
4	chr9:97824520..97826312-chr9:97836081..97838714,2	MCF-7	breast:
5	chr9:97836263..97838826-chr9:97847053..97849837,2	MCF-7	breast:
6	chr9:97821527..97823304-chr9:97837475..97839849,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000207563	Chromatin interaction
ENSG00000207617	Chromatin interaction
ENSG00000207864	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs1011784	0.94[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10739992	0.91[JPT][hapmap]
rs10761374	0.94[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10821447	0.93[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10821455	0.91[JPT][hapmap]
rs1979022	0.91[JPT][hapmap]
rs2166402	0.91[JPT][hapmap]
rs2297596	0.91[JPT][hapmap]
rs2297597	0.91[JPT][hapmap]
rs3277	0.91[JPT][hapmap]
rs3737142	0.91[JPT][hapmap]
rs3780564	0.91[JPT][hapmap]
rs3780568	0.91[JPT][hapmap]
rs3844341	0.91[JPT][hapmap]
rs3852402	0.91[JPT][hapmap]
rs4647459	0.91[JPT][hapmap]
rs4647462	0.91[JPT][hapmap]
rs4647475	0.91[JPT][hapmap]
rs4647528	0.91[JPT][hapmap]
rs4647554	0.80[CHB][hapmap];0.91[JPT][hapmap]
rs4647558	0.91[JPT][hapmap]
rs4657	0.94[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4743988	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4744442	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4744446	0.91[JPT][hapmap]
rs6479598	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7034538	0.91[JPT][hapmap]
rs7042293	0.81[CEU][hapmap];0.81[JPT][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7042320	0.94[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.89[YRI][hapmap];0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7850958	0.91[JPT][hapmap]
rs7854570	0.91[JPT][hapmap]
rs7874388	1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs963774	0.91[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933919	chr9:97619512-97919344	Weak transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	293 gene(s)	inside rSNPs	diseases
2	nsv1038106	chr9:97793038-97881416	Weak transcription Strong transcription Bivalent/Poised TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	274 gene(s)	inside rSNPs	diseases
3	nsv1038523	chr9:97797032-97923774	Strong transcription Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	274 gene(s)	inside rSNPs	diseases
4	nsv540175	chr9:97797032-97923774	Weak transcription Flanking Bivalent TSS/Enh Enhancers Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	274 gene(s)	inside rSNPs	diseases
5	nsv831656	chr9:97831551-97989980	Weak transcription Strong transcription Active TSS Genic enhancers Enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	274 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97813000-97873000	Weak transcription	K562	blood
2	chr9:97820000-97854200	Weak transcription	Fetal Brain Male	brain
3	chr9:97820400-97840800	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr9:97820400-97843000	Weak transcription	Primary T cells from cord blood	blood
5	chr9:97820600-97875000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
6	chr9:97821000-97838400	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr9:97821200-97839000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr9:97821200-97839600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr9:97821400-97843200	Weak transcription	Fetal Brain Female	brain
10	chr9:97822800-97845400	Weak transcription	Primary B cells from cord blood	blood
11	chr9:97823600-97845000	Weak transcription	Primary T helper cells PMA-I stimulated	--
12	chr9:97824800-97844600	Weak transcription	Fetal Thymus	thymus
13	chr9:97825200-97841000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr9:97825400-97854400	Weak transcription	Primary T cells fromperipheralblood	blood
15	chr9:97825800-97839200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr9:97825800-97843400	Weak transcription	Thymus	Thymus
17	chr9:97825800-97852600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr9:97826000-97842800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
19	chr9:97826200-97843200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
20	chr9:97826200-97847400	Weak transcription	HUVEC	blood vessel
21	chr9:97826400-97842800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr9:97826400-97844200	Weak transcription	GM12878-XiMat	blood
23	chr9:97827000-97839600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr9:97827800-97841400	Genic enhancers	Liver	Liver
25	chr9:97828200-97838800	Strong transcription	Fetal Intestine Large	intestine
26	chr9:97829200-97838400	Genic enhancers	Brain Hippocampus Middle	brain
27	chr9:97830600-97843200	Weak transcription	Primary hematopoietic stem cells	blood
28	chr9:97830600-97844800	Weak transcription	H9 Cell Line	embryonic stem cell
29	chr9:97830800-97838600	Strong transcription	Osteobl	bone
30	chr9:97830800-97840800	Strong transcription	NHEK	skin
31	chr9:97831000-97839000	Genic enhancers	Left Ventricle	heart
32	chr9:97831200-97841200	Genic enhancers	Pancreas	Pancrea
33	chr9:97832000-97838400	Genic enhancers	Skeletal Muscle Female	skeletal muscle
34	chr9:97832200-97840800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
35	chr9:97832200-97841000	Enhancers	Fetal Heart	heart
36	chr9:97833000-97838200	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr9:97833000-97838400	Strong transcription	Fetal Intestine Small	intestine
38	chr9:97833200-97839000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
39	chr9:97833200-97839800	Genic enhancers	Skeletal Muscle Male	skeletal muscle
40	chr9:97833200-97840600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr9:97833400-97838200	Weak transcription	Small Intestine	intestine
42	chr9:97833400-97839200	Genic enhancers	A549	lung
43	chr9:97833800-97838800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr9:97834200-97838600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr9:97834400-97838800	Strong transcription	Fetal Stomach	stomach
46	chr9:97834600-97839200	Weak transcription	NHDF-Ad	bronchial
47	chr9:97835200-97838600	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
48	chr9:97835400-97838600	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
49	chr9:97835400-97839200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
50	chr9:97835400-97845200	Weak transcription	HMEC	breast

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