Variant report

Variant	rs11238889
Chromosome Location	chr10:44668724-44668725
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:16)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:16 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:44667690..44669212-chr10:44804064..44805875,2	MCF-7	breast:
2	chr10:44668657..44669664-chr10:44740101..44741067,9	MCF-7	breast:
3	chr10:44273876..44274692-chr10:44668633..44669326,3	MCF-7	breast:
4	chr10:44668402..44669721-chr10:44731902..44733039,109	MCF-7	breast:
5	chr10:44668602..44669587-chr10:44739181..44740041,6	MCF-7	breast:
6	chr10:44668402..44669705-chr10:44731998..44733019,55	MCF-7	breast:
7	chr10:44185118..44187930-chr10:44667702..44670061,3	MCF-7	breast:
8	chr10:44668602..44669269-chr10:44739464..44740027,2	MCF-7	breast:
9	chr10:44668670..44669664-chr10:44740182..44741067,4	MCF-7	breast:
10	chr10:44666585..44670486-chr10:44673567..44676746,4	MCF-7	breast:
11	chr10:44273876..44274692-chr10:44668633..44669199,2	MCF-7	breast:
12	chr10:44668722..44669318-chr10:44880002..44880533,2	MCF-7	breast:
13	chr10:44668076..44670399-chr10:44731878..44734290,2	MCF-7	breast:
14	chr10:44668515..44669612-chr10:44796448..44797191,3	MCF-7	breast:
15	chr10:44668379..44669722-chr10:44731795..44732960,38	MCF-7	breast:
16	chr10:44664819..44666637-chr10:44666893..44669742,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000234973	Chromatin interaction
ENSG00000107562	Chromatin interaction

Extended variants
information (count: 88 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs10160170	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10899998	0.82[EUR][1000 genomes]
rs10900000	0.98[EUR][1000 genomes]
rs10900001	0.98[EUR][1000 genomes]
rs10900002	0.98[EUR][1000 genomes]
rs10900003	0.98[EUR][1000 genomes]
rs11238890	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11238891	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11238892	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11238894	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11238898	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11238901	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11238902	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11238909	0.82[EUR][1000 genomes]
rs11238911	0.98[EUR][1000 genomes]
rs11238912	0.98[EUR][1000 genomes]
rs11238915	0.98[EUR][1000 genomes]
rs11238916	0.98[EUR][1000 genomes]
rs11238923	0.95[EUR][1000 genomes]
rs11238925	0.95[EUR][1000 genomes]
rs11238927	0.95[EUR][1000 genomes]
rs11238929	0.94[EUR][1000 genomes]
rs11238943	0.94[EUR][1000 genomes]
rs11238944	0.94[EUR][1000 genomes]
rs11238946	0.94[EUR][1000 genomes]
rs11238947	0.92[EUR][1000 genomes]
rs11492882	0.94[EUR][1000 genomes]
rs11511571	0.94[EUR][1000 genomes]
rs11511599	0.94[EUR][1000 genomes]
rs11517223	0.94[EUR][1000 genomes]
rs11517251	0.94[EUR][1000 genomes]
rs11591406	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11592445	1.00[CEU][hapmap];0.85[CHB][hapmap];0.91[EUR][1000 genomes]
rs11594667	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11595159	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11595946	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12355852	0.95[EUR][1000 genomes]
rs1615053	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1619661	0.91[EUR][1000 genomes]
rs1657346	0.81[EUR][1000 genomes]
rs1657349	0.87[EUR][1000 genomes]
rs1680636	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1680639	0.95[EUR][1000 genomes]
rs1704217	0.91[EUR][1000 genomes]
rs1704218	0.91[EUR][1000 genomes]
rs1704221	0.92[EUR][1000 genomes]
rs1704222	0.94[EUR][1000 genomes]
rs1704223	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1704226	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1704228	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1746042	0.91[EUR][1000 genomes]
rs1746044	0.92[EUR][1000 genomes]
rs2664856	0.93[EUR][1000 genomes]
rs2781545	0.87[EUR][1000 genomes]
rs2804031	0.95[EUR][1000 genomes]
rs479596	0.85[CHB][hapmap]
rs523297	0.85[EUR][1000 genomes]
rs545025	0.91[EUR][1000 genomes]
rs556434	1.00[CEU][hapmap];0.85[CHB][hapmap];0.91[EUR][1000 genomes]
rs58129751	0.94[EUR][1000 genomes]
rs58540467	0.91[EUR][1000 genomes]
rs589655	0.90[EUR][1000 genomes]
rs596152	0.91[EUR][1000 genomes]
rs606314	0.90[EUR][1000 genomes]
rs617019	0.91[EUR][1000 genomes]
rs61855739	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61855740	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61855743	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61857460	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs622725	0.81[EUR][1000 genomes]
rs629213	0.91[EUR][1000 genomes]
rs661697	0.91[EUR][1000 genomes]
rs673354	0.91[EUR][1000 genomes]
rs673778	0.88[EUR][1000 genomes]
rs674746	0.91[EUR][1000 genomes]
rs676966	0.91[EUR][1000 genomes]
rs677465	1.00[CEU][hapmap];0.85[CHB][hapmap];0.91[EUR][1000 genomes]
rs680091	0.91[EUR][1000 genomes]
rs7079375	0.91[EUR][1000 genomes]
rs7082177	0.98[EUR][1000 genomes]
rs7086639	0.98[EUR][1000 genomes]
rs7097076	0.95[EUR][1000 genomes]
rs7100370	0.98[EUR][1000 genomes]
rs7900072	0.98[EUR][1000 genomes]
rs7902040	0.98[EUR][1000 genomes]
rs906944	0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1038511	chr10:44596885-44870030	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv1043342	chr10:44650635-44682716	Weak transcription Enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:44656600-44669400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr10:44656600-44673200	Weak transcription	Right Atrium	heart
3	chr10:44664200-44669000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr10:44666400-44669800	Enhancers	Pancreas	Pancrea
5	chr10:44667000-44670600	Enhancers	Breast Myoepithelial Primary Cells	Breast
6	chr10:44667400-44669800	Enhancers	Placenta Amnion	Placenta Amnion
7	chr10:44667400-44670000	Enhancers	Fetal Heart	heart
8	chr10:44667400-44671400	Weak transcription	Right Ventricle	heart
9	chr10:44667400-44675800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr10:44667600-44669800	Enhancers	Stomach Mucosa	stomach
11	chr10:44667800-44669000	Enhancers	Colon Smooth Muscle	Colon
12	chr10:44667800-44669200	Enhancers	Stomach Smooth Muscle	stomach
13	chr10:44667800-44669600	Enhancers	Duodenum Mucosa	Duodenum
14	chr10:44667800-44669600	Enhancers	Fetal Stomach	stomach
15	chr10:44667800-44669600	Enhancers	HepG2	liver
16	chr10:44667800-44669800	Enhancers	Rectal Smooth Muscle	rectum
17	chr10:44668200-44669400	Enhancers	Small Intestine	intestine
18	chr10:44668200-44669600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr10:44668200-44669600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr10:44668200-44669600	Enhancers	Fetal Intestine Small	intestine
21	chr10:44668400-44668800	Enhancers	Fetal Lung	lung
22	chr10:44668400-44669200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr10:44668400-44669400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr10:44668400-44669400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr10:44668400-44669600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr10:44668600-44669800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr10:44668600-44679600	Weak transcription	Left Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links