Variant report

Variant	rs3776173
Chromosome Location	chr5:100213557-100213558
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10515265	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs10515266	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs10515267	0.83[ASN][1000 genomes]
rs10515304	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1423381	1.00[CEU][hapmap];0.89[AMR][1000 genomes]
rs17159344	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs17159370	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs17159464	0.83[ASN][1000 genomes]
rs17159467	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs17159519	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs17159534	0.83[ASN][1000 genomes]
rs17159602	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs17159616	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs17159626	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs17160705	1.00[CEU][hapmap];0.89[AMR][1000 genomes]
rs17160732	1.00[CEU][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17160771	1.00[JPT][hapmap]
rs17160844	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17161136	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2544911	1.00[CEU][hapmap];0.89[AMR][1000 genomes]
rs2544912	1.00[CEU][hapmap]
rs2544914	1.00[CEU][hapmap];0.89[AMR][1000 genomes]
rs2544915	1.00[CEU][hapmap];0.89[AMR][1000 genomes]
rs2544916	0.85[AMR][1000 genomes]
rs2544917	0.87[AMR][1000 genomes]
rs2544919	1.00[CEU][hapmap];0.85[AMR][1000 genomes]
rs2548272	1.00[CEU][hapmap];0.89[AMR][1000 genomes]
rs2548277	1.00[CEU][hapmap];0.98[AMR][1000 genomes]
rs2561524	1.00[CEU][hapmap];0.89[AMR][1000 genomes]
rs2561525	1.00[CEU][hapmap];0.88[AMR][1000 genomes]
rs2561526	1.00[CEU][hapmap];0.89[AMR][1000 genomes]
rs2725118	0.83[AMR][1000 genomes]
rs2725123	1.00[CEU][hapmap];0.87[AMR][1000 genomes]
rs3776165	1.00[CEU][hapmap];0.89[AMR][1000 genomes]
rs3776166	1.00[CEU][hapmap];0.86[AMR][1000 genomes]
rs3857364	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs6595534	1.00[CEU][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6878151	0.83[ASN][1000 genomes]
rs6897681	0.83[ASN][1000 genomes]
rs73775624	0.83[ASN][1000 genomes]
rs768777	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7725476	0.83[ASN][1000 genomes]
rs980901	0.88[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021183	chr5:99625857-100221426	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	27 gene(s)	inside rSNPs	diseases
2	nsv1023765	chr5:99915011-100733755	Weak transcription Enhancers Bivalent/Poised TSS Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
3	esv1834675	chr5:100143084-100535029	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:100147600-100218000	Weak transcription	Thymus	Thymus
2	chr5:100177600-100215400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr5:100178200-100218400	Weak transcription	Placenta	Placenta
4	chr5:100191200-100224400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr5:100191200-100225200	Weak transcription	Fetal Lung	lung
6	chr5:100194600-100218200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
7	chr5:100195000-100220400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr5:100200200-100220200	Strong transcription	Dnd41	blood
9	chr5:100200200-100234400	Weak transcription	Fetal Brain Male	brain
10	chr5:100201800-100215400	Weak transcription	Small Intestine	intestine
11	chr5:100202800-100214400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr5:100204400-100218400	Weak transcription	Fetal Brain Female	brain
13	chr5:100206600-100214600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr5:100207600-100225000	Weak transcription	Rectal Mucosa Donor 29	rectum
15	chr5:100208000-100235800	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr5:100208800-100218400	Weak transcription	Brain Germinal Matrix	brain
17	chr5:100208800-100223600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
18	chr5:100209000-100213600	Weak transcription	Primary T cells from cord blood	blood
19	chr5:100209000-100218200	Weak transcription	Fetal Muscle Leg	muscle
20	chr5:100209600-100220800	Strong transcription	Primary B cells from cord blood	blood
21	chr5:100209600-100225600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr5:100210200-100222600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr5:100210400-100220200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr5:100210400-100223800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
25	chr5:100210600-100215400	Weak transcription	Primary T cells fromperipheralblood	blood
26	chr5:100211400-100214600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
27	chr5:100211400-100215400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr5:100211400-100218200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
29	chr5:100212000-100215600	ZNF genes & repeats	GM12878-XiMat	blood
30	chr5:100212200-100213600	Weak transcription	Primary monocytes fromperipheralblood	blood
31	chr5:100212600-100213800	Enhancers	Primary neutrophils fromperipheralblood	blood
32	chr5:100212600-100216000	Strong transcription	Primary T helper cells fromperipheralblood	blood
33	chr5:100212800-100213800	Enhancers	Monocytes-CD14+_RO01746	blood
34	chr5:100212800-100216800	Strong transcription	Primary hematopoietic stem cells	blood
35	chr5:100213000-100214000	Strong transcription	Fetal Thymus	thymus
36	chr5:100213000-100214600	Strong transcription	Primary T helper cells PMA-I stimulated	--
37	chr5:100213200-100214400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
38	chr5:100213200-100217200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
39	chr5:100213200-100223400	Strong transcription	Primary B cells from peripheral blood	blood
40	chr5:100213400-100213800	Enhancers	HUVEC	blood vessel
41	chr5:100213400-100216000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
42	chr5:100213400-100216000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
43	chr5:100213400-100217400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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