Variant report

Variant	rs4896478
Chromosome Location	chr6:139931269-139931270
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:139930810..139933752-chr6:140097356..140098943,2	K562	blood:
2	chr6:139695674..139697461-chr6:139931043..139933413,2	MCF-7	breast:
3	chr6:139924274..139926752-chr6:139931019..139932700,2	K562	blood:
4	chr6:139695536..139697565-chr6:139930414..139932692,2	K562	blood:

Variant related genes	Relation type
ENSG00000164442	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10223884	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12202000	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12203872	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12205687	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12211407	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1541249	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2327975	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2327976	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2876419	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4317424	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4419683	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4419684	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4557537	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4895574	0.81[CEU][hapmap];0.82[EUR][1000 genomes]
rs4896479	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4896480	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4896483	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4896484	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7357040	0.82[AMR][1000 genomes]
rs7738952	0.82[EUR][1000 genomes]
rs9285491	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9321734	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9321735	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9321737	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9321738	0.83[EUR][1000 genomes]
rs9321739	0.87[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs9321740	0.82[EUR][1000 genomes]
rs9321741	0.82[EUR][1000 genomes]
rs9373239	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9373240	0.82[EUR][1000 genomes]
rs9376438	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9376441	0.82[EUR][1000 genomes]
rs9385870	0.81[CEU][hapmap];0.83[EUR][1000 genomes]
rs9389698	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9389700	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9389702	0.82[EUR][1000 genomes]
rs9399287	0.83[EUR][1000 genomes]
rs9403095	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9484293	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9484294	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9484295	0.94[AFR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9484298	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9495535	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9495552	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[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	nsv869066	chr6:139777114-140639695	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:139928400-139931600	Enhancers	Primary neutrophils fromperipheralblood	blood
2	chr6:139928800-139931600	Weak transcription	Monocytes-CD14+_RO01746	blood
3	chr6:139929000-139932800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr6:139929200-139932200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
5	chr6:139929200-139932600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr6:139929200-139932800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr6:139929200-139932800	Weak transcription	Pancreas	Pancrea
8	chr6:139929200-139941000	Weak transcription	Aorta	Aorta
9	chr6:139929200-139944000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr6:139929400-139932200	Weak transcription	Cortex derived primary cultured neurospheres	brain
11	chr6:139929600-139932600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr6:139929800-139932200	Weak transcription	K562	blood
13	chr6:139930000-139931600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr6:139930000-139932400	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr6:139930000-139932600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr6:139930000-139932600	Weak transcription	HUES6 Cell Line	embryonic stem cell
17	chr6:139930200-139932600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr6:139930400-139932000	Weak transcription	HUES64 Cell Line	embryonic stem cell
19	chr6:139930400-139932400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr6:139930800-139931400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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