Variant report

Variant	rs9261306
Chromosome Location	chr6:30045731-30045732
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:30044585..30046967-chr6:30097709..30100269,2	MCF-7	breast:
2	chr6:30044892..30047064-chr6:30055499..30057098,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000252901	Chromatin interaction

Extended variants
information (count: 115 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:111)

rs_ID	r²[population]
rs1048412	0.92[ASN][1000 genomes]
rs2074479	0.92[ASN][1000 genomes]
rs2074480	0.92[ASN][1000 genomes]
rs2074481	0.92[ASN][1000 genomes]
rs2074482	0.92[ASN][1000 genomes]
rs2246638	0.83[ASN][1000 genomes]
rs2286405	0.86[ASN][1000 genomes]
rs2301753	0.92[ASN][1000 genomes]
rs2301754	0.90[ASN][1000 genomes]
rs2394256	0.86[ASN][1000 genomes]
rs2394257	0.82[ASN][1000 genomes]
rs2394734	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2571431	0.80[ASN][1000 genomes]
rs3734835	0.86[ASN][1000 genomes]
rs3765604	0.86[ASN][1000 genomes]
rs3765606	0.86[ASN][1000 genomes]
rs3807034	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs3807035	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs3869067	0.86[ASN][1000 genomes]
rs3869068	0.86[ASN][1000 genomes]
rs3893530	0.86[ASN][1000 genomes]
rs4448133	0.86[ASN][1000 genomes]
rs6902691	0.86[ASN][1000 genomes]
rs6905157	0.84[ASN][1000 genomes]
rs6911467	0.86[ASN][1000 genomes]
rs6912154	0.82[ASN][1000 genomes]
rs6919617	0.86[ASN][1000 genomes]
rs6922640	0.82[ASN][1000 genomes]
rs6926792	0.86[ASN][1000 genomes]
rs6931776	0.86[ASN][1000 genomes]
rs6941318	0.81[ASN][1000 genomes]
rs7738475	0.86[ASN][1000 genomes]
rs7742417	0.86[ASN][1000 genomes]
rs7742871	0.86[ASN][1000 genomes]
rs7746866	0.86[ASN][1000 genomes]
rs7751116	0.86[ASN][1000 genomes]
rs7758512	0.86[ASN][1000 genomes]
rs7760299	0.86[ASN][1000 genomes]
rs7770520	0.83[AFR][1000 genomes];0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7770546	0.83[AFR][1000 genomes];0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs8347	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9261020	0.82[ASN][1000 genomes]
rs9261022	0.82[ASN][1000 genomes]
rs9261023	0.82[ASN][1000 genomes]
rs9261024	0.82[ASN][1000 genomes]
rs9261026	0.82[ASN][1000 genomes]
rs9261031	0.81[ASN][1000 genomes]
rs9261049	0.81[ASN][1000 genomes]
rs9261060	0.82[ASN][1000 genomes]
rs9261074	0.83[ASN][1000 genomes]
rs9261103	0.83[ASN][1000 genomes]
rs9261105	0.86[ASN][1000 genomes]
rs9261110	0.86[ASN][1000 genomes]
rs9261111	0.86[ASN][1000 genomes]
rs9261113	0.86[ASN][1000 genomes]
rs9261115	0.86[ASN][1000 genomes]
rs9261116	0.86[ASN][1000 genomes]
rs9261128	0.85[ASN][1000 genomes]
rs9261129	0.86[ASN][1000 genomes]
rs9261137	0.86[ASN][1000 genomes]
rs9261145	0.86[ASN][1000 genomes]
rs9261149	0.86[ASN][1000 genomes]
rs9261150	0.86[ASN][1000 genomes]
rs9261154	0.86[ASN][1000 genomes]
rs9261162	0.86[ASN][1000 genomes]
rs9261163	0.86[ASN][1000 genomes]
rs9261170	0.86[ASN][1000 genomes]
rs9261174	0.86[ASN][1000 genomes]
rs9261180	0.84[ASN][1000 genomes]
rs9261183	0.86[ASN][1000 genomes]
rs9261185	0.86[ASN][1000 genomes]
rs9261186	0.86[ASN][1000 genomes]
rs9261187	0.86[ASN][1000 genomes]
rs9261188	0.86[ASN][1000 genomes]
rs9261189	0.86[ASN][1000 genomes]
rs9261195	0.86[ASN][1000 genomes]
rs9261198	0.86[ASN][1000 genomes]
rs9261199	0.86[ASN][1000 genomes]
rs9261200	0.86[ASN][1000 genomes]
rs9261201	0.84[ASN][1000 genomes]
rs9261204	0.86[ASN][1000 genomes]
rs9261205	0.86[ASN][1000 genomes]
rs9261206	0.84[ASN][1000 genomes]
rs9261209	0.86[ASN][1000 genomes]
rs9261210	0.86[ASN][1000 genomes]
rs9261216	0.86[ASN][1000 genomes]
rs9261217	0.86[ASN][1000 genomes]
rs9261221	0.86[ASN][1000 genomes]
rs9261222	0.86[ASN][1000 genomes]
rs9261291	0.92[ASN][1000 genomes]
rs9261292	0.92[ASN][1000 genomes]
rs9261294	0.92[ASN][1000 genomes]
rs9261295	0.92[ASN][1000 genomes]
rs9261297	0.92[ASN][1000 genomes]
rs9261298	0.92[ASN][1000 genomes]
rs9261299	0.92[ASN][1000 genomes]
rs9261300	0.92[ASN][1000 genomes]
rs9261302	0.92[ASN][1000 genomes]
rs9261307	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261309	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261310	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261311	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261318	0.83[ASN][1000 genomes]
rs9261366	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9261368	0.83[AFR][1000 genomes];0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9261370	0.83[AFR][1000 genomes];0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9261371	0.83[AFR][1000 genomes];0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9261373	0.83[AFR][1000 genomes];0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9261385	0.83[ASN][1000 genomes]
rs9261388	0.83[ASN][1000 genomes]
rs9261389	0.83[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	nsv1031115	chr6:29934199-30058223	Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	nsv538172	chr6:29934199-30058223	Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
3	nsv432866	chr6:30026321-30080921	Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
4	nsv884049	chr6:30037353-30047403	Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Genic enhancers Flanking Active TSS Enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9261306	C6orf12	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30043000-30045800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
2	chr6:30043200-30045800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
3	chr6:30043200-30045800	Enhancers	Primary T helper naive cells from peripheral blood	blood
4	chr6:30043800-30045800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
5	chr6:30044200-30045800	Enhancers	Primary T cells fromperipheralblood	blood
6	chr6:30044200-30045800	Bivalent Enhancer	HepG2	liver
7	chr6:30044600-30045800	Enhancers	Primary T helper cells PMA-I stimulated	--
8	chr6:30044600-30045800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
9	chr6:30044600-30045800	Enhancers	Primary T killer memory cells from peripheral blood	blood
10	chr6:30044600-30046600	Bivalent Enhancer	Primary T cells from cord blood	blood
11	chr6:30044800-30045800	Bivalent Enhancer	Primary hematopoietic stem cells short term culture	blood
12	chr6:30044800-30046400	Enhancers	Breast Myoepithelial Primary Cells	Breast
13	chr6:30045200-30046000	Bivalent Enhancer	Fetal Thymus	thymus
14	chr6:30045600-30047000	Enhancers	Dnd41	blood

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