Variant report

Variant	rs563544
Chromosome Location	chr8:104011350-104011351
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	chr8:104009482..104012163-chr8:104031785..104034084,2	MCF-7	breast:
2	chr8:103874754..103876393-chr8:104010549..104012345,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-KB-1507C5.2.1-2	chr8:104011293-104014653	NONHSAT128145

Variant related genes	Relation type
ENSG00000155096	Chromatin interaction
ENSG00000254236	Chromatin interaction
ENSG00000155097	Chromatin interaction

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs10092124	0.81[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10955300	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11775864	0.83[EUR][1000 genomes]
rs11777066	0.81[JPT][hapmap];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11779536	0.82[EUR][1000 genomes]
rs11985451	0.81[JPT][hapmap];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1512348	0.87[JPT][hapmap]
rs1566158	0.87[JPT][hapmap]
rs1849339	0.82[JPT][hapmap]
rs1913025	0.81[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2388373	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2679733	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2679734	0.85[ASN][1000 genomes]
rs28693757	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2935582	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2935583	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2942225	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2945830	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3018946	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3018947	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4373497	0.81[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4400350	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4592000	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs492009	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs492108	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs494767	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs494941	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs498193	0.86[CHB][hapmap];0.93[JPT][hapmap];0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs514502	0.81[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs515024	0.87[JPT][hapmap];0.83[ASN][1000 genomes]
rs522300	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs543674	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs543736	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs548291	0.90[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs549251	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs55743653	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56004705	0.80[ASN][1000 genomes]
rs565338	1.00[JPT][hapmap];0.87[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs571301	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs577704	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs579324	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs582100	0.87[JPT][hapmap];0.81[ASN][1000 genomes]
rs595227	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs596631	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs600667	0.80[JPT][hapmap]
rs611839	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs612340	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs612363	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62525305	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62525310	0.81[EUR][1000 genomes]
rs626234	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs626253	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs627111	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs640049	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs641814	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs641839	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs661012	1.00[JPT][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs688298	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs688308	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs693341	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7013362	0.80[JPT][hapmap]
rs7816814	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7834756	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7834916	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs868907	0.81[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[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	esv33118	chr8:103358567-104068172	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	145 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:103990400-104011400	Weak transcription	Placenta	Placenta
2	chr8:103993400-104012400	Weak transcription	Spleen	Spleen
3	chr8:104001600-104011400	Weak transcription	Fetal Brain Male	brain
4	chr8:104006800-104012400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr8:104007200-104014400	Weak transcription	Primary B cells from peripheral blood	blood
6	chr8:104007600-104011400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
7	chr8:104007600-104011800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr8:104007600-104014200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr8:104008000-104012200	Weak transcription	Monocytes-CD14+_RO01746	blood
10	chr8:104008600-104012400	Weak transcription	Primary monocytes fromperipheralblood	blood
11	chr8:104009000-104011800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr8:104009000-104012400	Weak transcription	Primary neutrophils fromperipheralblood	blood
13	chr8:104009800-104011600	Enhancers	iPS-18 Cell Line	embryonic stem cell
14	chr8:104010400-104011400	Enhancers	HUES6 Cell Line	embryonic stem cell
15	chr8:104010600-104011600	Enhancers	ES-I3 Cell Line	embryonic stem cell
16	chr8:104010600-104011800	Enhancers	HUES48 Cell Line	embryonic stem cell
17	chr8:104010600-104012800	Strong transcription	Primary B cells from cord blood	blood
18	chr8:104010600-104013200	Enhancers	HUES64 Cell Line	embryonic stem cell
19	chr8:104010600-104013600	Enhancers	H1 Cell Line	embryonic stem cell
20	chr8:104010800-104012400	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr8:104010800-104012600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr8:104011000-104011800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
23	chr8:104011200-104013400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

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