Variant report

Variant	rs4380396
Chromosome Location	chr3:178571235-178571236
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:178569425..178573784-chr3:178575417..178579104,5	MCF-7	breast:
2	chr3:178563436..178567007-chr3:178568860..178573987,6	K562	blood:
3	chr3:178563215..178565966-chr3:178568860..178571886,3	K562	blood:
4	chr3:178568437..178571453-chr3:178575010..178578055,4	K562	blood:

Variant related genes	Relation type
ENSG00000237978	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs35432713	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4381916	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4552328	0.97[AFR][1000 genomes];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4618207	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4621308	0.94[ASW][hapmap];0.92[CEU][hapmap];0.83[CHB][hapmap];0.81[CHD][hapmap];0.91[GIH][hapmap];1.00[LWK][hapmap];0.90[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6443589	0.89[CEU][hapmap];0.91[CHB][hapmap];0.83[CHD][hapmap];0.83[JPT][hapmap];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6443590	0.94[ASW][hapmap];0.96[CEU][hapmap];0.83[CHB][hapmap];0.81[CHD][hapmap];0.91[GIH][hapmap];1.00[LWK][hapmap];0.83[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6443591	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6443592	0.97[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6443593	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6443594	0.97[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6443595	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6443596	0.96[CEU][hapmap];0.83[CHB][hapmap];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6443597	0.81[ASN][1000 genomes]
rs6805942	0.87[CHB][hapmap];0.81[ASN][1000 genomes]
rs7429900	0.87[CHB][hapmap]
rs7612721	0.87[CHB][hapmap];0.81[ASN][1000 genomes]
rs7646561	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7653581	0.96[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9832653	0.90[EUR][1000 genomes]
rs9844876	0.96[CEU][hapmap];0.83[CHB][hapmap];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4380396	MAP6D1	cis	cerebellum	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:178567200-178575000	Weak transcription	Right Ventricle	heart
2	chr3:178568000-178578200	Weak transcription	HSMM	muscle
3	chr3:178568200-178577400	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr3:178569200-178572400	Weak transcription	HSMMtube	muscle
5	chr3:178569200-178572800	Weak transcription	Colon Smooth Muscle	Colon
6	chr3:178570400-178574600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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