Variant report

Variant	rs3026775
Chromosome Location	chr10:43618395-43618396
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:43609230..43611797-chr10:43616396..43619297,2	K562	blood:
2	chr10:43616473..43618715-chr10:43626088..43628928,2	MCF-7	breast:
3	chr10:43611889..43615361-chr10:43616709..43619694,4	MCF-7	breast:

Extended variants
information (count: 23 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs11238472	0.90[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs12244413	1.00[CEU][hapmap];1.00[MEX][hapmap];0.84[AMR][1000 genomes]
rs12570625	0.89[AMR][1000 genomes]
rs1800862	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1955355	0.84[AMR][1000 genomes]
rs2051043	1.00[ASW][hapmap]
rs3026692	1.00[ASW][hapmap]
rs3026713	1.00[ASW][hapmap]
rs3026768	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3026771	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3026785	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35718664	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs41298781	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs41301581	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs41301585	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv534548	chr10:42890664-43729688	Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
2	nsv430159	chr10:43291894-43946294	Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	92 gene(s)	inside rSNPs	diseases
3	nsv1038102	chr10:43441601-43642908	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
4	nsv895082	chr10:43530071-43755506	Strong transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
5	nsv895083	chr10:43549708-43765485	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
6	nsv1051701	chr10:43555542-43642895	Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Enhancers Weak transcription Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
7	nsv1046892	chr10:43609488-43636278	Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
8	esv275022	chr10:43613026-43620551	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3026775	GALNACT-2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:43601400-43632800	Weak transcription	Gastric	stomach
2	chr10:43601600-43624800	Weak transcription	HUES6 Cell Line	embryonic stem cell
3	chr10:43606400-43632600	Weak transcription	Right Atrium	heart
4	chr10:43606600-43626000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr10:43609800-43626800	Weak transcription	Fetal Intestine Small	intestine
6	chr10:43611800-43621200	Weak transcription	Fetal Intestine Large	intestine
7	chr10:43614600-43618400	Weak transcription	Liver	Liver
8	chr10:43614800-43626800	Enhancers	Primary monocytes fromperipheralblood	blood
9	chr10:43615200-43618400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
10	chr10:43615400-43618600	Enhancers	Primary hematopoietic stem cells	blood
11	chr10:43615400-43619600	Enhancers	Fetal Muscle Leg	muscle
12	chr10:43615600-43621400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr10:43617200-43618800	Weak transcription	Lung	lung
14	chr10:43617200-43619400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr10:43617200-43620400	Enhancers	Primary hematopoietic stem cells short term culture	blood
16	chr10:43617200-43624600	Weak transcription	Fetal Lung	lung
17	chr10:43617200-43632000	Weak transcription	Cortex derived primary cultured neurospheres	brain
18	chr10:43617400-43618400	Weak transcription	HSMMtube	muscle
19	chr10:43617400-43618800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr10:43617400-43619800	Weak transcription	Duodenum Smooth Muscle	Duodenum
21	chr10:43617400-43620200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr10:43617400-43622000	Weak transcription	HUVEC	blood vessel
23	chr10:43617400-43632200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
24	chr10:43617600-43618400	Weak transcription	Colonic Mucosa	Colon
25	chr10:43617600-43621800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
26	chr10:43617600-43623200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr10:43617600-43624400	Weak transcription	Fetal Thymus	thymus
28	chr10:43617800-43621200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
29	chr10:43618000-43619000	Weak transcription	Primary B cells from peripheral blood	blood
30	chr10:43618000-43621800	Enhancers	Monocytes-CD14+_RO01746	blood
31	chr10:43618000-43622000	Weak transcription	Primary B cells from cord blood	blood
32	chr10:43618000-43622000	Weak transcription	GM12878-XiMat	blood
33	chr10:43618000-43622200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
34	chr10:43618000-43632600	Weak transcription	Spleen	Spleen
35	chr10:43618200-43618600	Weak transcription	Fetal Muscle Trunk	muscle

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