Variant report

Variant	rs6832095
Chromosome Location	chr4:173935056-173935057
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr4:173931770..173935396-chr4:174291765..174294812,3	MCF-7	breast:
2	chr4:173934562..173935102-chr4:174178699..174179259,2	MCF-7	breast:
3	chr4:173933398..173935446-chr4:174254852..174256461,2	K562	blood:
4	chr4:173792673..173795160-chr4:173933274..173935636,2	MCF-7	breast:
5	chr4:173933040..173936036-chr4:173946705..173949222,2	K562	blood:
6	chr4:173934352..173935185-chr4:174178993..174179502,2	MCF-7	breast:
7	chr4:173934377..173935350-chr4:174222613..174223693,4	MCF-7	breast:
8	chr4:173934707..173935259-chr4:174237986..174238803,2	MCF-7	breast:
9	chr4:173933406..173936346-chr4:174089041..174090950,2	MCF-7	breast:
10	chr4:173934362..173935304-chr4:174222401..174223403,6	K562	blood:

No data

Variant related genes	Relation type
ENSG00000245213	Chromatin interaction
ENSG00000164105	Chromatin interaction
ENSG00000109586	Chromatin interaction
ENSG00000164104	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10019310	0.93[EUR][1000 genomes]
rs10020676	0.92[CEU][hapmap];1.00[GIH][hapmap];0.90[TSI][hapmap];0.94[EUR][1000 genomes]
rs11132976	0.96[CEU][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11721460	0.92[CEU][hapmap];1.00[GIH][hapmap];0.83[MEX][hapmap];0.97[TSI][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11722826	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11939508	0.85[EUR][1000 genomes]
rs13125629	0.96[CEU][hapmap];0.93[YRI][hapmap];0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13145272	0.93[EUR][1000 genomes]
rs17059107	0.93[EUR][1000 genomes]
rs28451718	0.90[EUR][1000 genomes]
rs28569824	0.90[EUR][1000 genomes]
rs3905287	0.92[CEU][hapmap];1.00[GIH][hapmap];0.90[TSI][hapmap];0.93[EUR][1000 genomes]
rs4331761	0.84[EUR][1000 genomes]
rs4557236	0.84[EUR][1000 genomes]
rs4695821	1.00[CEU][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6833557	1.00[CEU][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7669563	0.96[CEU][hapmap];0.89[EUR][1000 genomes]
rs7680255	0.96[GIH][hapmap];0.88[TSI][hapmap];0.82[EUR][1000 genomes]
rs9996247	0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948856	chr4:173388217-173967546	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv949126	chr4:173466221-174051451	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6832095	GALNT7	cis	parietal	SCAN

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:173904200-173935200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr4:173920600-173942400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr4:173933400-173936000	Enhancers	ES-I3 Cell Line	embryonic stem cell
4	chr4:173933600-173936600	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr4:173933600-173936600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr4:173933600-173937000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr4:173934200-173936200	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr4:173934200-173936200	Enhancers	Hela-S3	cervix
9	chr4:173934400-173935600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr4:173934400-173936200	Enhancers	HUES6 Cell Line	embryonic stem cell
11	chr4:173934400-173936200	Enhancers	iPS-20b Cell Line	embryonic stem cell
12	chr4:173934400-173936600	Enhancers	iPS-18 Cell Line	embryonic stem cell
13	chr4:173934600-173935400	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr4:173934600-173935600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr4:173934800-173935400	Enhancers	Dnd41	blood
16	chr4:173934800-173935600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr4:173934800-173935600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr4:173934800-173935600	Enhancers	HMEC	breast
19	chr4:173934800-173935600	Enhancers	Monocytes-CD14+_RO01746	blood
20	chr4:173934800-173935800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr4:173934800-173935800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr4:173934800-173935800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr4:173934800-173935800	Enhancers	Brain Anterior Caudate	brain
24	chr4:173934800-173935800	Enhancers	HSMMtube	muscle
25	chr4:173934800-173935800	Enhancers	NHDF-Ad	bronchial
26	chr4:173934800-173935800	Enhancers	NHEK	skin
27	chr4:173934800-173936000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr4:173934800-173936000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr4:173934800-173936000	Enhancers	Stomach Mucosa	stomach
30	chr4:173934800-173936000	Enhancers	HUVEC	blood vessel
31	chr4:173934800-173936000	Enhancers	NH-A	brain
32	chr4:173934800-173936000	Enhancers	Osteobl	bone
33	chr4:173934800-173936200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr4:173934800-173936600	Enhancers	HUES48 Cell Line	embryonic stem cell
35	chr4:173935000-173935600	Flanking Active TSS	A549	lung
36	chr4:173935000-173936000	Enhancers	Muscle Satellite Cultured Cells	--
37	chr4:173935000-173936400	Enhancers	HSMM	muscle

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