Variant report

Variant	rs28663502
Chromosome Location	chr3:150213074-150213075
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:17)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:17 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:150124942..150128625-chr3:150212182..150215161,4	MCF-7	breast:
2	chr3:149945312..149945836-chr3:150212802..150213347,2	K562	blood:
3	chr3:150127999..150131136-chr3:150212098..150216943,5	MCF-7	breast:
4	chr3:150003831..150004823-chr3:150212697..150213907,4	MCF-7	breast:
5	chr3:150133801..150136735-chr3:150211220..150213846,2	MCF-7	breast:
6	chr3:150125461..150127974-chr3:150211949..150215332,4	K562	blood:
7	chr3:150151232..150153181-chr3:150211698..150213677,2	MCF-7	breast:
8	chr3:150146836..150150944-chr3:150211993..150216271,5	K562	blood:
9	chr3:150124804..150129560-chr3:150211663..150216825,11	K562	blood:
10	chr3:150124117..150127899-chr3:150211651..150217297,6	MCF-7	breast:
11	chr3:150021343..150022241-chr3:150213070..150213965,4	MCF-7	breast:
12	chr3:150021321..150022164-chr3:150213061..150213617,2	K562	blood:
13	chr3:150142988..150145486-chr3:150212475..150215228,2	MCF-7	breast:
14	chr3:150021287..150022177-chr3:150212869..150214032,8	MCF-7	breast:
15	chr3:150128686..150130712-chr3:150211662..150215340,3	MCF-7	breast:
16	chr3:149958358..149958906-chr3:150213044..150213822,2	MCF-7	breast:
17	chr3:150063831..150066264-chr3:150212112..150214058,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000196428	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10935804	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10935805	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4277711	0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4681624	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4681626	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4681627	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4681628	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs55667242	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs55788129	0.96[ASN][1000 genomes]
rs56397117	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6440681	0.80[ASN][1000 genomes]
rs7634891	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9289814	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9839876	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9866194	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9866525	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9881276	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532662	chr3:150180747-150633414	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 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	chr3:150188200-150218800	Weak transcription	HSMM	muscle
2	chr3:150210600-150218600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr3:150212200-150213200	Enhancers	ES-I3 Cell Line	embryonic stem cell
4	chr3:150212200-150213200	Enhancers	Primary monocytes fromperipheralblood	blood
5	chr3:150212200-150213200	Enhancers	K562	blood
6	chr3:150212200-150213600	Enhancers	Monocytes-CD14+_RO01746	blood
7	chr3:150212200-150214000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr3:150212200-150214000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr3:150212400-150213200	Enhancers	H9 Cell Line	embryonic stem cell
10	chr3:150212400-150213200	Enhancers	Fetal Heart	heart
11	chr3:150212400-150213200	Enhancers	A549	lung
12	chr3:150212400-150213400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr3:150212400-150213600	Enhancers	Primary hematopoietic stem cells short term culture	blood
14	chr3:150212600-150213200	Enhancers	Brain Germinal Matrix	brain
15	chr3:150212800-150213200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr3:150212800-150213200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr3:150212800-150213200	Enhancers	Fetal Intestine Large	intestine
18	chr3:150212800-150213200	Enhancers	Fetal Intestine Small	intestine
19	chr3:150212800-150213200	Enhancers	Hela-S3	cervix
20	chr3:150212800-150213400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr3:150213000-150213200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
22	chr3:150213000-150213200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr3:150213000-150213200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr3:150213000-150213200	Enhancers	NHEK	skin
25	chr3:150213000-150213400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
26	chr3:150213000-150213400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr3:150213000-150214000	Enhancers	NHLF	lung

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