Variant report

Variant	rs2035935
Chromosome Location	chr3:141306013-141306014
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs11711375	0.88[JPT][hapmap]
rs11917587	0.88[JPT][hapmap]
rs1493209	0.88[JPT][hapmap]
rs1493210	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16851438	0.83[JPT][hapmap]
rs16851441	1.00[JPT][hapmap]
rs16851483	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1863867	0.88[JPT][hapmap]
rs2035936	0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.87[TSI][hapmap];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2312193	0.88[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs2639997	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.81[YRI][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2640017	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.83[TSI][hapmap];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs295299	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs295300	0.84[CHB][hapmap];0.86[CHD][hapmap];0.82[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.88[TSI][hapmap];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs295320	0.88[JPT][hapmap]
rs295321	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs295323	0.88[JPT][hapmap]
rs295324	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34558081	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3732869	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3806646	0.88[JPT][hapmap]
rs3806648	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3821709	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3821710	0.88[JPT][hapmap]
rs3821712	0.88[JPT][hapmap]
rs4683404	0.88[JPT][hapmap]
rs4683610	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4683612	0.87[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs58025624	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60654199	0.84[ASN][1000 genomes]
rs6767158	0.88[JPT][hapmap]
rs6785874	0.88[JPT][hapmap]
rs6795168	0.88[JPT][hapmap]
rs6800122	0.88[JPT][hapmap]
rs6808837	0.88[JPT][hapmap]
rs73871847	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7626871	0.88[JPT][hapmap]
rs7627774	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7627807	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7643837	0.88[JPT][hapmap]
rs9878347	0.83[JPT][hapmap]
rs9879503	0.83[JPT][hapmap]

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	nsv949709	chr3:141295050-142178144	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs2035935	ZBTB38	Cis_1M	lymphoblastoid	RTeQTL
rs2035935	ZBTB38	cis	Lymphoblastoid	GTEx
rs2035935	ZBTB38	cis	multi-tissue	Pritchard

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:141236400-141306600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr3:141254800-141319200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr3:141255200-141320000	Weak transcription	Brain Cingulate Gyrus	brain
4	chr3:141255400-141319200	Weak transcription	Aorta	Aorta
5	chr3:141265200-141336200	Weak transcription	Psoas Muscle	Psoas
6	chr3:141272600-141319200	Strong transcription	Dnd41	blood
7	chr3:141275800-141320600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr3:141276400-141329400	Weak transcription	Small Intestine	intestine
9	chr3:141277200-141341400	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr3:141277800-141312000	Strong transcription	Primary monocytes fromperipheralblood	blood
11	chr3:141281800-141329400	Weak transcription	Fetal Brain Male	brain
12	chr3:141288000-141312400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr3:141288200-141320000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr3:141288400-141316400	Strong transcription	Monocytes-CD14+_RO01746	blood
15	chr3:141288600-141308400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr3:141288600-141316400	Strong transcription	Primary B cells from peripheral blood	blood
17	chr3:141289000-141311800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr3:141289000-141316600	Strong transcription	Primary neutrophils fromperipheralblood	blood
19	chr3:141289200-141309000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
20	chr3:141289200-141316400	Strong transcription	Fetal Thymus	thymus
21	chr3:141293800-141319000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
22	chr3:141294800-141319200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr3:141295000-141319200	Weak transcription	Esophagus	oesophagus
24	chr3:141295200-141320000	Strong transcription	Primary T cells fromperipheralblood	blood
25	chr3:141295400-141314000	Weak transcription	Colonic Mucosa	Colon
26	chr3:141295600-141319600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
27	chr3:141295600-141320000	Strong transcription	Primary T helper cells fromperipheralblood	blood
28	chr3:141295800-141313000	Strong transcription	Rectal Mucosa Donor 29	rectum
29	chr3:141295800-141316400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr3:141295800-141320800	Strong transcription	Primary T helper cells PMA-I stimulated	--
31	chr3:141296000-141316000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr3:141296200-141309000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
33	chr3:141296400-141307000	Strong transcription	Liver	Liver
34	chr3:141296400-141307600	Strong transcription	HSMM	muscle
35	chr3:141296600-141307400	Strong transcription	Duodenum Mucosa	Duodenum
36	chr3:141296600-141312200	Strong transcription	Primary B cells from cord blood	blood
37	chr3:141296800-141307600	Strong transcription	Primary T helper naive cells from peripheral blood	blood
38	chr3:141296800-141307800	Strong transcription	Rectal Mucosa Donor 31	rectum
39	chr3:141296800-141310800	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
40	chr3:141296800-141316400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
41	chr3:141296800-141316600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr3:141297000-141308000	Strong transcription	Placenta	Placenta
43	chr3:141297000-141313600	Strong transcription	Primary T cells from cord blood	blood
44	chr3:141297400-141307200	Weak transcription	Stomach Mucosa	stomach
45	chr3:141297400-141312400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
46	chr3:141297600-141316400	Strong transcription	Osteobl	bone
47	chr3:141297600-141325000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr3:141298000-141328400	Weak transcription	Hela-S3	cervix
49	chr3:141298600-141312600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
50	chr3:141298600-141326800	Weak transcription	Fetal Heart	heart

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