Variant report

Variant	rs9919979
Chromosome Location	chr15:83748799-83748800
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:83734628..83737735-chr15:83747569..83749901,3	MCF-7	breast:
2	chr15:83748502..83753073-chr15:83753716..83757836,7	K562	blood:
3	chr15:83748502..83751441-chr15:83755306..83758878,3	K562	blood:

Variant related genes	Relation type
ENSG00000064726	Chromatin interaction
ENSG00000263643	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10220725	1.00[ASN][1000 genomes]
rs17295457	1.00[ASN][1000 genomes]
rs28408839	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28429062	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28454771	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28463621	1.00[ASN][1000 genomes]
rs28479338	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28509292	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28510490	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28523446	0.81[EUR][1000 genomes]
rs28540116	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28558700	0.81[EUR][1000 genomes]
rs28567531	0.81[EUR][1000 genomes]
rs28569354	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28570610	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28662361	1.00[CEU][hapmap];0.82[YRI][hapmap];0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28707195	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28711332	1.00[CEU][hapmap];0.82[YRI][hapmap];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28755408	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28819476	1.00[ASN][1000 genomes]
rs28836869	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67634629	1.00[ASN][1000 genomes]
rs7167364	0.81[EUR][1000 genomes]
rs7169539	1.00[ASN][1000 genomes]
rs7170046	1.00[ASN][1000 genomes]
rs7171743	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs7173876	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs72755930	1.00[ASN][1000 genomes]
rs72755935	1.00[ASN][1000 genomes]
rs72755947	1.00[ASN][1000 genomes]
rs72755962	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72755995	0.81[EUR][1000 genomes]
rs72758306	0.81[EUR][1000 genomes]
rs72758308	0.81[EUR][1000 genomes]
rs72758310	0.81[EUR][1000 genomes]
rs8025896	0.81[AFR][1000 genomes]
rs8038619	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[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	nsv1040336	chr15:83578947-83768335	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9919979	HDGFRP3	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:83746800-83748800	Enhancers	Skeletal Muscle Male	skeletal muscle
2	chr15:83747800-83749000	Weak transcription	Fetal Brain Male	brain
3	chr15:83747800-83751400	Weak transcription	Psoas Muscle	Psoas
4	chr15:83748200-83748800	Enhancers	Fetal Muscle Leg	muscle
5	chr15:83748400-83748800	Enhancers	K562	blood
6	chr15:83748600-83751400	Weak transcription	Skeletal Muscle Female	skeletal muscle

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