Variant report

Variant	rs2304342
Chromosome Location	chr11:85345545-85345546
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:85338792..85341114-chr11:85342281..85345655,5	MCF-7	breast:
2	chr11:85344282..85346606-chr11:85367280..85369213,2	MCF-7	breast:
3	chr11:85338448..85341428-chr11:85341635..85345744,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000150672	Chromatin interaction
ENSG00000171204	Chromatin interaction

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs11234386	0.89[ASN][1000 genomes]
rs11234387	0.89[ASN][1000 genomes]
rs11234388	1.00[CHB][hapmap];0.93[JPT][hapmap];0.89[ASN][1000 genomes]
rs11234389	1.00[CHB][hapmap];0.93[JPT][hapmap];0.84[ASN][1000 genomes]
rs11234390	0.84[ASN][1000 genomes]
rs11234391	1.00[CHB][hapmap];0.84[ASN][1000 genomes]
rs11234393	1.00[CHB][hapmap];0.84[JPT][hapmap]
rs11234397	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs11607789	0.85[CHB][hapmap]
rs11827749	0.82[CHB][hapmap]
rs17148355	1.00[CHB][hapmap];0.93[JPT][hapmap];0.89[ASN][1000 genomes]
rs17148514	0.85[CHB][hapmap]
rs17208525	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17208602	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17208616	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17810701	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17810766	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17810802	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17810855	1.00[CHB][hapmap];0.92[JPT][hapmap];0.93[ASN][1000 genomes]
rs17811120	1.00[CHB][hapmap]
rs2044393	1.00[CHB][hapmap]
rs2276018	1.00[CHB][hapmap];0.93[JPT][hapmap];0.91[ASN][1000 genomes]
rs2304343	0.86[JPT][hapmap]
rs2374638	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs494119	1.00[CHB][hapmap];0.86[JPT][hapmap];0.94[ASN][1000 genomes]
rs56695336	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57431471	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58631677	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs59508078	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs616309	1.00[CHB][hapmap];0.92[JPT][hapmap];0.94[ASN][1000 genomes]
rs645798	1.00[CHB][hapmap];0.93[JPT][hapmap];0.94[ASN][1000 genomes]
rs678376	0.85[CHB][hapmap];0.86[JPT][hapmap]
rs72953967	0.85[ASN][1000 genomes]
rs72953982	0.89[ASN][1000 genomes]
rs72953991	0.89[ASN][1000 genomes]
rs72953995	0.94[ASN][1000 genomes]
rs72955904	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72955912	0.93[EUR][1000 genomes]
rs72955918	0.93[EUR][1000 genomes]
rs72955922	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72955939	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72958012	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72958014	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72958027	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1051155	chr11:85006564-85721261	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv541110	chr11:85006564-85721261	Enhancers Strong transcription Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
3	nsv898047	chr11:85180409-85377707	Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
4	esv2758279	chr11:85180480-85603988	Flanking Active TSS Active TSS Weak transcription Enhancers Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
5	esv2759845	chr11:85180480-85603988	Flanking Active TSS Weak transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
6	nsv898048	chr11:85206156-85404138	Flanking Active TSS Genic enhancers Active TSS Weak transcription Strong transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
7	esv3463608	chr11:85345255-85346759	Strong transcription Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	esv3463620	chr11:85345255-85346759	Weak transcription Strong transcription Enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:85340200-85348400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr11:85340200-85351800	Weak transcription	Gastric	stomach
3	chr11:85340200-85352400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr11:85340400-85349400	Weak transcription	Pancreas	Pancrea
5	chr11:85340400-85351000	Weak transcription	Esophagus	oesophagus
6	chr11:85340600-85345600	Weak transcription	Ovary	ovary
7	chr11:85340600-85345800	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr11:85340600-85347600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr11:85340600-85350000	Weak transcription	Stomach Mucosa	stomach
10	chr11:85340600-85352800	Weak transcription	Fetal Brain Male	brain
11	chr11:85340600-85358200	Weak transcription	Aorta	Aorta
12	chr11:85340800-85350000	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr11:85340800-85358200	Weak transcription	Fetal Stomach	stomach
14	chr11:85340800-85358200	Weak transcription	Right Ventricle	heart
15	chr11:85340800-85358200	Weak transcription	HSMMtube	muscle
16	chr11:85341000-85351600	Weak transcription	Thymus	Thymus
17	chr11:85341200-85345600	Weak transcription	Brain Germinal Matrix	brain
18	chr11:85341200-85348000	Weak transcription	Fetal Brain Female	brain
19	chr11:85341200-85354400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr11:85341200-85358000	Weak transcription	Brain Cingulate Gyrus	brain
21	chr11:85341200-85358000	Weak transcription	NHLF	lung
22	chr11:85341200-85358200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr11:85341200-85358200	Weak transcription	Rectal Smooth Muscle	rectum
24	chr11:85341200-85358200	Weak transcription	Spleen	Spleen
25	chr11:85341200-85358400	Weak transcription	Small Intestine	intestine
26	chr11:85341400-85345600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr11:85341400-85354200	Weak transcription	Fetal Intestine Small	intestine
28	chr11:85341600-85346400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
29	chr11:85341600-85347000	Weak transcription	Colon Smooth Muscle	Colon
30	chr11:85341800-85348800	Strong transcription	Liver	Liver
31	chr11:85341800-85353000	Weak transcription	Fetal Heart	heart
32	chr11:85342000-85347600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
33	chr11:85342000-85348400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
34	chr11:85342000-85349200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
35	chr11:85342200-85358200	Weak transcription	Brain Inferior Temporal Lobe	brain
36	chr11:85342400-85345600	Weak transcription	Sigmoid Colon	Sigmoid Colon
37	chr11:85342400-85352600	Weak transcription	Psoas Muscle	Psoas
38	chr11:85342800-85345600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
39	chr11:85342800-85347000	Weak transcription	HSMM	muscle
40	chr11:85342800-85352600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
41	chr11:85343000-85345600	Weak transcription	Placenta	Placenta
42	chr11:85343000-85345800	Weak transcription	Muscle Satellite Cultured Cells	--
43	chr11:85343000-85349400	Strong transcription	Primary T helper cells fromperipheralblood	blood
44	chr11:85343600-85345600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr11:85344400-85348800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr11:85344400-85349400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
47	chr11:85344400-85350400	Strong transcription	Monocytes-CD14+_RO01746	blood
48	chr11:85344600-85346000	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
49	chr11:85344600-85346600	Strong transcription	Primary T killer memory cells from peripheral blood	blood
50	chr11:85344600-85347800	Strong transcription	Primary T helper cells PMA-I stimulated	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links