Variant report

Variant	rs1001965
Chromosome Location	chr6:149587810-149587811
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:149585876..149588526-chr6:149590777..149593659,3	K562	blood:

Extended variants
information (count: 52 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs11966037	0.82[JPT][hapmap]
rs13203475	0.85[CHB][hapmap]
rs1446561	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1446562	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2011315	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2166493	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35552421	0.82[ASN][1000 genomes]
rs4609053	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4897095	0.82[JPT][hapmap]
rs4897096	0.82[JPT][hapmap]
rs4897099	0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4897102	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4897103	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4897104	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4897105	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4897106	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4897109	0.82[ASN][1000 genomes]
rs4897110	0.80[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs6570957	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6570958	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6570961	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6570962	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6899998	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6903389	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6904464	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6906793	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6907145	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6907747	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6908247	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6908296	0.80[ASN][1000 genomes]
rs6912297	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6912567	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6912622	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6921428	0.98[ASN][1000 genomes]
rs6922846	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6928940	0.80[ASN][1000 genomes]
rs6929714	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6935536	0.82[JPT][hapmap]
rs6938137	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7748981	0.82[JPT][hapmap]
rs7756413	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9285518	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9322171	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9390663	0.82[JPT][hapmap]
rs9390669	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9404024	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9404025	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9485361	0.81[JPT][hapmap]
rs9485362	0.82[JPT][hapmap]
rs9498266	0.82[JPT][hapmap]
rs999120	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]

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	nsv1024776	chr6:149398652-149654593	Weak transcription Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1001965	LRP11	cis	cerebellum	SCAN
rs1001965	MTHFD1L	cis	parietal	SCAN

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149575400-149589200	Weak transcription	Spleen	Spleen
2	chr6:149584800-149588200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
3	chr6:149586400-149592600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr6:149586600-149589000	Enhancers	Primary B cells from peripheral blood	blood
5	chr6:149586600-149592200	Enhancers	Primary B cells from cord blood	blood
6	chr6:149586600-149597000	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr6:149586800-149588600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
8	chr6:149586800-149592400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
9	chr6:149586800-149592400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
10	chr6:149587000-149592000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
11	chr6:149587000-149592200	Weak transcription	Primary T cells fromperipheralblood	blood
12	chr6:149587200-149588800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
13	chr6:149587200-149591800	Weak transcription	Fetal Thymus	thymus
14	chr6:149587200-149592000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
15	chr6:149587200-149592600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
16	chr6:149587400-149588600	Flanking Active TSS	GM12878-XiMat	blood
17	chr6:149587400-149591800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
18	chr6:149587400-149592000	Weak transcription	Primary T helper cells PMA-I stimulated	--
19	chr6:149587400-149592400	Weak transcription	Primary T cells from cord blood	blood
20	chr6:149587800-149588200	Weak transcription	Primary T helper cells fromperipheralblood	blood

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