Variant report

Variant	rs57903480
Chromosome Location	chr3:160988548-160988549
allele	C/T
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:15)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:15 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:160980523..160999163-chr3:161073509..161094838,104	MCF-7	breast:
2	chr3:160985097..160988877-chr3:161008569..161012184,4	MCF-7	breast:
3	chr3:160977108..160997706-chr3:161077424..161093939,169	MCF-7	breast:
4	chr3:160964835..160967254-chr3:160988025..160991527,3	MCF-7	breast:
5	chr3:160936882..160947576-chr3:160982516..160994324,28	MCF-7	breast:
6	chr3:160984342..160995741-chr3:161044454..161065477,51	MCF-7	breast:
7	chr3:160987464..160989480-chr3:161032587..161035559,2	MCF-7	breast:
8	chr3:160938332..160940990-chr3:160988088..160989605,2	MCF-7	breast:
9	chr3:160987569..160990430-chr3:161053046..161055088,2	K562	blood:
10	chr3:160815916..160820569-chr3:160987357..160992942,8	MCF-7	breast:
11	chr3:160979328..160995719-chr3:161119748..161144811,174	MCF-7	breast:
12	chr3:160987260..160989063-chr3:160992148..160994885,3	MCF-7	breast:
13	chr3:160977409..160979546-chr3:160987399..160989130,2	MCF-7	breast:
14	chr3:160982688..160996909-chr3:161122010..161144833,109	MCF-7	breast:
15	chr3:160987740..160990491-chr3:161040751..161042747,3	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000169255	Chromatin interaction
ENSG00000271052	Chromatin interaction
ENSG00000169251	Chromatin interaction
ENSG00000240567	Chromatin interaction
ENSG00000196542	Chromatin interaction
ENSG00000243838	Chromatin interaction

Extended variants
information (count: 98 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:96)

rs_ID	r²[population]
rs1017799	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12486069	0.84[ASN][1000 genomes]
rs12489004	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs12489125	0.84[ASN][1000 genomes]
rs12490149	0.97[ASN][1000 genomes]
rs12494725	0.80[ASN][1000 genomes]
rs12496235	0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs13315320	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs13319558	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs13319771	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs16831850	0.84[ASN][1000 genomes]
rs16831864	0.84[ASN][1000 genomes]
rs16831882	0.84[ASN][1000 genomes]
rs16831942	0.84[ASN][1000 genomes]
rs2306209	0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs28451189	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs28704960	0.84[ASN][1000 genomes]
rs28713364	0.83[AMR][1000 genomes]
rs4296611	0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4352387	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs4468992	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs4580574	0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4635725	0.86[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs59567999	0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs59757775	0.87[ASN][1000 genomes]
rs59776766	0.84[ASN][1000 genomes]
rs60121330	0.84[ASN][1000 genomes]
rs6441350	0.84[ASN][1000 genomes]
rs6441363	0.80[AMR][1000 genomes]
rs6441365	0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6441372	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs6441375	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6762064	0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6774919	0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6775446	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs6775931	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs6778186	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs6782415	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6782518	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs6785714	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs6787447	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs6788738	0.83[AMR][1000 genomes]
rs6790805	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs6796168	0.84[ASN][1000 genomes]
rs6801664	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs6805976	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs73017340	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs73026933	0.93[ASN][1000 genomes]
rs73026967	0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs73026968	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs73026983	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs73026987	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs73026989	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs73878309	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7615833	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs7615868	0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7624791	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs7626773	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs7634299	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs7651924	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7652624	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9290070	0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9290071	0.86[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9810351	0.84[ASN][1000 genomes]
rs9812574	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9818470	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9818835	0.84[ASN][1000 genomes]
rs9819793	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9822705	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9822916	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9823424	0.84[ASN][1000 genomes]
rs9824535	0.84[ASN][1000 genomes]
rs9824805	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9826857	0.84[ASN][1000 genomes]
rs9830183	0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs9833270	0.93[ASN][1000 genomes]
rs9834806	0.80[AMR][1000 genomes]
rs9835530	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9838945	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9841871	0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9842290	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9847842	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9851699	0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9855112	0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9855572	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9856742	0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9858907	0.84[ASN][1000 genomes]
rs9859641	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9860980	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9862867	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9871753	0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9876077	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9877309	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9880536	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9884100	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9985364	0.86[AMR][1000 genomes];0.93[ASN][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	nsv931072	chr3:160669567-161159779	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
2	nsv1015063	chr3:160918307-161024070	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:72 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160939800-160995800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr3:160941000-160993400	Weak transcription	Pancreas	Pancrea
3	chr3:160956400-160993000	Weak transcription	Esophagus	oesophagus
4	chr3:160966200-160993200	Weak transcription	Right Ventricle	heart
5	chr3:160968800-160992200	Weak transcription	Brain Angular Gyrus	brain
6	chr3:160970400-160995600	Weak transcription	Colon Smooth Muscle	Colon
7	chr3:160970800-160995600	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr3:160971000-160989000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr3:160971000-160993800	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr3:160971000-160995400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr3:160971000-160995400	Weak transcription	Brain Cingulate Gyrus	brain
12	chr3:160971200-160988800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr3:160971200-160995200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr3:160971200-160996000	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr3:160971800-160993000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr3:160972200-160996600	Weak transcription	Brain Substantia Nigra	brain
17	chr3:160972400-160993800	Weak transcription	Stomach Smooth Muscle	stomach
18	chr3:160972800-160995400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
19	chr3:160973200-160993200	Weak transcription	Gastric	stomach
20	chr3:160973400-160989000	Weak transcription	Fetal Thymus	thymus
21	chr3:160974600-160990000	Weak transcription	Duodenum Mucosa	Duodenum
22	chr3:160975400-160995800	Weak transcription	Fetal Intestine Large	intestine
23	chr3:160976400-160989400	Weak transcription	Primary B cells from peripheral blood	blood
24	chr3:160976600-160989200	Weak transcription	Primary hematopoietic stem cells	blood
25	chr3:160976600-160995400	Weak transcription	Duodenum Smooth Muscle	Duodenum
26	chr3:160976800-160991800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
27	chr3:160979200-160999800	Weak transcription	Psoas Muscle	Psoas
28	chr3:160981000-160993600	Weak transcription	Fetal Muscle Trunk	muscle
29	chr3:160981200-160990600	Weak transcription	HSMMtube	muscle
30	chr3:160982200-160989200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
31	chr3:160982200-160993000	Weak transcription	Ovary	ovary
32	chr3:160982200-160993400	Weak transcription	Lung	lung
33	chr3:160982200-160993400	Weak transcription	Rectal Mucosa Donor 31	rectum
34	chr3:160982200-160994000	Weak transcription	Fetal Brain Female	brain
35	chr3:160982200-160994200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr3:160982200-160994400	Weak transcription	Cortex derived primary cultured neurospheres	brain
37	chr3:160982200-160994600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
38	chr3:160982200-160995000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
39	chr3:160982200-160995400	Weak transcription	Aorta	Aorta
40	chr3:160982400-160988800	Weak transcription	Left Ventricle	heart
41	chr3:160982400-160992400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
42	chr3:160982400-160993200	Weak transcription	Fetal Muscle Leg	muscle
43	chr3:160982400-160993200	Weak transcription	Fetal Stomach	stomach
44	chr3:160982400-160996600	Weak transcription	Adipose Nuclei	Adipose
45	chr3:160982600-160989400	Weak transcription	Monocytes-CD14+_RO01746	blood
46	chr3:160983000-160991200	Weak transcription	Primary B cells from cord blood	blood
47	chr3:160983200-160988800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr3:160983400-160990200	Weak transcription	HepG2	liver
49	chr3:160983400-160990800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
50	chr3:160983600-160988800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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