Variant report

Variant	rs2840113
Chromosome Location	chr5:115903909-115903910
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	chr5:115903078..115905605-chr5:115909022..115912009,2	MCF-7	breast:
2	chr5:115901171..115904653-chr5:115905070..115909680,4	K562	blood:

Variant related genes	Relation type
ENSG00000092421	Chromatin interaction
ENSG00000249167	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10045872	0.91[ASN][1000 genomes]
rs10053792	0.92[ASN][1000 genomes]
rs10055012	0.89[ASW][hapmap];0.90[GIH][hapmap];0.89[LWK][hapmap];0.94[MEX][hapmap];0.91[TSI][hapmap];0.86[YRI][hapmap];0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10061055	0.94[ASN][1000 genomes]
rs10062998	0.94[ASN][1000 genomes]
rs10066922	0.92[ASN][1000 genomes]
rs10070276	0.82[ASN][1000 genomes]
rs10073289	0.89[ASN][1000 genomes]
rs10074788	0.92[ASN][1000 genomes]
rs10075410	0.92[ASN][1000 genomes]
rs10080023	0.92[ASN][1000 genomes]
rs1027742	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11953558	0.94[ASN][1000 genomes]
rs12719220	0.93[ASN][1000 genomes]
rs13354122	0.92[ASN][1000 genomes]
rs13355655	0.93[ASN][1000 genomes]
rs13357599	0.94[ASN][1000 genomes]
rs13360587	0.95[ASN][1000 genomes]
rs1345706	0.90[ASN][1000 genomes]
rs1345707	0.90[ASN][1000 genomes]
rs17140120	0.81[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap];0.89[ASN][1000 genomes]
rs17140139	0.82[CEU][hapmap];0.87[GIH][hapmap];0.81[LWK][hapmap];0.89[MEX][hapmap];0.81[TSI][hapmap];0.91[YRI][hapmap];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs17140171	0.88[ASN][1000 genomes]
rs17140176	0.88[ASN][1000 genomes]
rs1862372	0.80[CEU][hapmap];0.94[CHB][hapmap];0.93[CHD][hapmap];0.93[GIH][hapmap];0.93[JPT][hapmap];0.83[MEX][hapmap];0.93[ASN][1000 genomes]
rs1862373	0.82[ASN][1000 genomes]
rs28489253	0.88[ASN][1000 genomes]
rs3806914	1.00[CHB][hapmap];0.93[JPT][hapmap];0.95[ASN][1000 genomes]
rs3806915	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3806916	0.95[ASN][1000 genomes]
rs5016403	0.95[CEU][hapmap];0.91[YRI][hapmap];0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs56257700	0.83[ASN][1000 genomes]
rs57497884	0.92[ASN][1000 genomes]
rs57557217	0.92[ASN][1000 genomes]
rs58364462	0.87[ASN][1000 genomes]
rs59351578	0.95[ASN][1000 genomes]
rs6878936	0.92[ASN][1000 genomes]
rs6897765	0.92[ASN][1000 genomes]
rs6898172	0.92[ASN][1000 genomes]
rs73780374	0.90[ASN][1000 genomes]
rs73780375	0.90[ASN][1000 genomes]
rs7730674	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9327006	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9327007	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9327008	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9327010	0.92[ASN][1000 genomes]
rs9327011	0.92[ASN][1000 genomes]
rs9327012	0.95[ASN][1000 genomes]

No data

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:115890600-115907800	Weak transcription	Spleen	Spleen
2	chr5:115890800-115907600	Weak transcription	Colonic Mucosa	Colon
3	chr5:115891000-115907600	Weak transcription	Ovary	ovary
4	chr5:115891200-115904600	Weak transcription	Fetal Stomach	stomach
5	chr5:115891400-115905200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr5:115896000-115904800	Weak transcription	Duodenum Mucosa	Duodenum
7	chr5:115896000-115905000	Weak transcription	Psoas Muscle	Psoas
8	chr5:115896000-115905200	Weak transcription	Lung	lung
9	chr5:115896000-115907600	Weak transcription	Fetal Muscle Trunk	muscle
10	chr5:115896400-115904200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr5:115896600-115905800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
12	chr5:115897200-115909800	Transcr. at gene 5' and 3'	HUES6 Cell Line	embryonic stem cell
13	chr5:115898400-115907400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
14	chr5:115898600-115905200	Genic enhancers	ES-UCSF4 Cell Line	embryonic stem cell
15	chr5:115898800-115904200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr5:115898800-115904400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr5:115900000-115904000	Weak transcription	Duodenum Smooth Muscle	Duodenum
18	chr5:115900200-115907400	Weak transcription	Colon Smooth Muscle	Colon
19	chr5:115900600-115907000	Weak transcription	Stomach Smooth Muscle	stomach
20	chr5:115901000-115908000	Transcr. at gene 5' and 3'	HUES64 Cell Line	embryonic stem cell
21	chr5:115901200-115907600	Weak transcription	Pancreas	Pancrea
22	chr5:115901800-115906600	Transcr. at gene 5' and 3'	iPS-20b Cell Line	embryonic stem cell
23	chr5:115902000-115905200	Weak transcription	Fetal Muscle Leg	muscle
24	chr5:115902000-115906800	Weak transcription	Rectal Smooth Muscle	rectum
25	chr5:115902200-115904000	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr5:115902200-115904400	Weak transcription	Fetal Brain Female	brain
27	chr5:115902400-115904400	Weak transcription	Fetal Lung	lung
28	chr5:115902400-115906000	Enhancers	HepG2	liver
29	chr5:115902600-115904000	Weak transcription	H9 Cell Line	embryonic stem cell
30	chr5:115902600-115904200	Weak transcription	Brain Anterior Caudate	brain
31	chr5:115902600-115904200	Weak transcription	Fetal Brain Male	brain
32	chr5:115902600-115904400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
33	chr5:115902600-115904400	Weak transcription	Brain Substantia Nigra	brain
34	chr5:115902600-115904800	Weak transcription	Cortex derived primary cultured neurospheres	brain
35	chr5:115902800-115904200	Weak transcription	Fetal Intestine Large	intestine
36	chr5:115902800-115904400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
37	chr5:115902800-115904400	Weak transcription	Fetal Kidney	kidney
38	chr5:115902800-115904600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
39	chr5:115902800-115905200	Weak transcription	Placenta	Placenta
40	chr5:115903000-115905000	Transcr. at gene 5' and 3'	HUES48 Cell Line	embryonic stem cell
41	chr5:115903000-115905400	Genic enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
42	chr5:115903000-115905600	Transcr. at gene 5' and 3'	ES-I3 Cell Line	embryonic stem cell
43	chr5:115903000-115906600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
44	chr5:115903200-115904200	Genic enhancers	H1 Cell Line	embryonic stem cell
45	chr5:115903200-115904600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
46	chr5:115903200-115905000	Transcr. at gene 5' and 3'	iPS-15b Cell Line	embryonic stem cell
47	chr5:115903400-115904200	Enhancers	Rectal Mucosa Donor 31	rectum
48	chr5:115903400-115904400	Transcr. at gene 5' and 3'	iPS-18 Cell Line	embryonic stem cell
49	chr5:115903400-115904400	Weak transcription	Brain Inferior Temporal Lobe	brain
50	chr5:115903400-115904400	Weak transcription	Fetal Intestine Small	intestine

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