Variant report

Variant	rs62242787
Chromosome Location	chr3:45995908-45995909
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	chr3:45994933..45997538-chr3:46007570..46009630,2	K562	blood:

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs1532071	0.81[ASN][1000 genomes]
rs1552489	0.81[ASN][1000 genomes]
rs1552490	0.81[ASN][1000 genomes]
rs17078449	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17078454	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1994488	0.81[ASN][1000 genomes]
rs1994489	0.81[ASN][1000 genomes]
rs2234351	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35537559	0.85[EUR][1000 genomes]
rs3774638	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3774640	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3796376	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3821883	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4682799	0.81[ASN][1000 genomes]
rs4682800	0.81[ASN][1000 genomes]
rs4683153	0.94[ASN][1000 genomes]
rs57204020	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs59226168	0.83[EUR][1000 genomes]
rs59767267	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs60237998	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs60779624	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62242788	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62242796	0.85[EUR][1000 genomes]
rs62245106	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62245108	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6778225	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6778324	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6781121	0.94[ASN][1000 genomes]
rs6781668	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6800954	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7631809	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9311380	0.81[ASN][1000 genomes]
rs936939	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9824253	0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876734	chr3:45725031-46468467	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv498008	chr3:45733423-46319401	Strong transcription Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv834678	chr3:45804294-46010256	Enhancers Flanking Bivalent TSS/Enh Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
4	nsv876736	chr3:45900621-46027410	Strong transcription Enhancers Transcr. at gene 5' and 3' Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:45959400-46009800	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr3:45980800-46013400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
3	chr3:45981000-45999400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr3:45981600-46025000	Strong transcription	Fetal Intestine Large	intestine
5	chr3:45982200-45999800	Strong transcription	Stomach Smooth Muscle	stomach
6	chr3:45982800-46000800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
7	chr3:45983200-46012400	Strong transcription	Monocytes-CD14+_RO01746	blood
8	chr3:45984400-45998200	Strong transcription	Left Ventricle	heart
9	chr3:45984400-46000800	Weak transcription	Psoas Muscle	Psoas
10	chr3:45986200-45998200	Strong transcription	Brain Substantia Nigra	brain
11	chr3:45986200-46006800	Strong transcription	Fetal Intestine Small	intestine
12	chr3:45986200-46007600	Strong transcription	Fetal Stomach	stomach
13	chr3:45986400-45997000	Strong transcription	Pancreas	Pancrea
14	chr3:45986400-45997200	Strong transcription	Brain Inferior Temporal Lobe	brain
15	chr3:45986400-46001400	Weak transcription	A549	lung
16	chr3:45986400-46006200	Strong transcription	Fetal Muscle Leg	muscle
17	chr3:45986400-46006800	Strong transcription	Fetal Muscle Trunk	muscle
18	chr3:45986400-46007600	Strong transcription	Duodenum Smooth Muscle	Duodenum
19	chr3:45986400-46012200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
20	chr3:45986400-46026600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr3:45986600-45997000	Strong transcription	H9 Cell Line	embryonic stem cell
22	chr3:45986600-45997000	Strong transcription	Brain Angular Gyrus	brain
23	chr3:45986600-45997400	Strong transcription	Brain Cingulate Gyrus	brain
24	chr3:45986600-46009000	Strong transcription	Primary B cells from cord blood	blood
25	chr3:45986600-46012000	Strong transcription	Primary monocytes fromperipheralblood	blood
26	chr3:45986600-46026800	Strong transcription	HUES48 Cell Line	embryonic stem cell
27	chr3:45986800-46012200	Strong transcription	Primary B cells from peripheral blood	blood
28	chr3:45987000-45997600	Strong transcription	Cortex derived primary cultured neurospheres	brain
29	chr3:45987200-46013600	Strong transcription	Primary hematopoietic stem cells	blood
30	chr3:45987200-46027200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr3:45987400-46026600	Strong transcription	HUES6 Cell Line	embryonic stem cell
32	chr3:45987600-45998200	Genic enhancers	Primary T cells fromperipheralblood	blood
33	chr3:45987600-46002000	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
34	chr3:45987600-46007800	Strong transcription	K562	blood
35	chr3:45987800-45997400	Strong transcription	Brain Anterior Caudate	brain
36	chr3:45987800-45997600	Strong transcription	Brain Hippocampus Middle	brain
37	chr3:45987800-46001400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr3:45987800-46012200	Strong transcription	HepG2	liver
39	chr3:45987800-46026400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
40	chr3:45987800-46026800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
41	chr3:45987800-46027200	Strong transcription	HUES64 Cell Line	embryonic stem cell
42	chr3:45988000-45997000	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr3:45988000-45997000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
44	chr3:45988000-45997600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
45	chr3:45988000-45999400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
46	chr3:45988000-46012000	Strong transcription	H1 Cell Line	embryonic stem cell
47	chr3:45988000-46026600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
48	chr3:45988200-46009800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
49	chr3:45988200-46012000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
50	chr3:45988800-46011800	Strong transcription	Lung	lung

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