Variant report

Variant	rs3103306
Chromosome Location	chr17:28654992-28654993
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs1050565	0.86[CHB][hapmap];0.88[JPT][hapmap]
rs11656408	0.89[ASN][1000 genomes]
rs11867581	0.82[JPT][hapmap]
rs12938714	0.91[ASN][1000 genomes]
rs12939390	0.93[CHB][hapmap];0.88[JPT][hapmap];0.91[ASN][1000 genomes]
rs12941223	0.91[ASN][1000 genomes]
rs12945042	0.80[ASN][1000 genomes]
rs12949747	0.86[CHB][hapmap];0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs13341611	0.83[JPT][hapmap]
rs1487971	0.82[JPT][hapmap]
rs17767256	0.86[CHB][hapmap];0.88[JPT][hapmap]
rs2321705	0.80[EUR][1000 genomes]
rs2321706	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3103303	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3110060	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3110061	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3110452	0.83[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3110454	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs33980254	0.93[CHB][hapmap];0.88[JPT][hapmap];0.82[ASN][1000 genomes]
rs34353378	0.89[ASN][1000 genomes]
rs34622227	0.91[ASN][1000 genomes]
rs35724800	0.84[ASN][1000 genomes]
rs36000555	0.91[ASN][1000 genomes]
rs36048853	0.88[ASN][1000 genomes]
rs3764449	0.93[CHB][hapmap];0.88[JPT][hapmap];0.91[ASN][1000 genomes]
rs3794806	0.86[CHB][hapmap];0.89[JPT][hapmap]
rs3816828	0.88[JPT][hapmap]
rs6505165	0.82[JPT][hapmap]
rs6505169	0.82[JPT][hapmap]
rs6505173	0.82[JPT][hapmap]
rs7208052	0.93[CHB][hapmap];0.89[JPT][hapmap];0.84[ASN][1000 genomes]
rs7210085	0.82[JPT][hapmap]
rs7214014	0.82[JPT][hapmap]
rs7214248	0.86[CHB][hapmap];0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs7214991	0.82[JPT][hapmap]
rs7215330	0.82[JPT][hapmap]
rs7223821	0.86[CHB][hapmap];0.88[JPT][hapmap]
rs73268099	0.82[ASN][1000 genomes]
rs7342921	0.93[CHB][hapmap];0.89[JPT][hapmap];0.89[ASN][1000 genomes]
rs7342929	0.83[JPT][hapmap]
rs8072345	0.82[JPT][hapmap]
rs8078900	0.82[ASN][1000 genomes]
rs8080149	0.89[ASN][1000 genomes]
rs998087	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][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	nsv1064975	chr17:28604187-28851905	Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS Enhancers Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
2	nsv543299	chr17:28604187-28851905	Active TSS Weak transcription Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
3	nsv543300	chr17:28620420-28659310	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3103306	BLMH	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:28644000-28667000	Weak transcription	Colonic Mucosa	Colon
2	chr17:28644200-28672600	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr17:28644400-28658400	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr17:28648000-28663800	Weak transcription	Spleen	Spleen
5	chr17:28651000-28657800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
6	chr17:28651800-28655600	Weak transcription	Primary T cells fromperipheralblood	blood
7	chr17:28651800-28657000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
8	chr17:28652200-28655600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
9	chr17:28652200-28656400	Weak transcription	Primary T cells from cord blood	blood
10	chr17:28652600-28656400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr17:28652800-28655600	Weak transcription	Primary T helper cells fromperipheralblood	blood
12	chr17:28653000-28655600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
13	chr17:28653000-28656200	Weak transcription	Primary T helper cells PMA-I stimulated	--
14	chr17:28653000-28658200	Weak transcription	Fetal Intestine Small	intestine
15	chr17:28653800-28655000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
16	chr17:28653800-28655000	Enhancers	Fetal Intestine Large	intestine
17	chr17:28653800-28659000	Weak transcription	Pancreatic Islets	Pancreatic Islet
18	chr17:28654400-28655200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
19	chr17:28654400-28658400	Weak transcription	Rectal Mucosa Donor 31	rectum

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