Variant report

Variant	rs13211166
Chromosome Location	chr6:27265940-27265941
allele	A/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:14)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:14 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:27264794..27266821-chr6:27355400..27358259,2	K562	blood:
2	chr6:27265877..27267509-chr6:27513280..27515497,2	K562	blood:
3	chr6:27264234..27265943-chr6:27637252..27639333,2	K562	blood:
4	chr6:27180877..27182881-chr6:27262753..27266056,3	K562	blood:
5	chr6:27113560..27116380-chr6:27265078..27267189,2	K562	blood:
6	chr6:27172666..27175265-chr6:27265465..27267285,2	K562	blood:
7	chr6:27264602..27266621-chr6:27277586..27279716,2	MCF-7	breast:
8	chr6:27112367..27116319-chr6:27264620..27267784,3	K562	blood:
9	chr6:27263790..27266292-chr6:27469077..27471199,2	MCF-7	breast:
10	chr6:27263338..27266126-chr6:27718637..27721483,2	K562	blood:
11	chr6:27197041..27202373-chr6:27261458..27267425,7	K562	blood:
12	chr6:27263999..27267440-chr6:27299677..27302604,5	K562	blood:
13	chr6:27264150..27266831-chr6:27300629..27302449,2	K562	blood:
14	chr6:27097573..27099800-chr6:27264464..27267307,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000124613	Chromatin interaction
ENSG00000158553	Chromatin interaction
ENSG00000184825	Chromatin interaction
ENSG00000197903	Chromatin interaction
ENSG00000265565	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs11755662	1.00[JPT][hapmap]
rs12664426	1.00[JPT][hapmap]
rs16897282	1.00[CHB][hapmap]
rs16897515	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap]
rs2893910	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3800316	1.00[JPT][hapmap]
rs3800318	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];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6921711	1.00[JPT][hapmap]
rs6938200	1.00[JPT][hapmap]
rs72839449	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7746199	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7760931	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948921	chr6:26556890-27443957	Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS Enhancers Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	472 gene(s)	inside rSNPs	diseases
2	nsv1017328	chr6:27177147-27369588	Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
3	nsv883505	chr6:27210614-27300580	Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Flanking Active TSS Bivalent Enhancer Enhancers ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs13211166	BTN3A2///BTN3A3	Cis_1M	lymphoblastoid	RTeQTL
rs13211166	BTN3A2	cis	Whole Blood	GTEx
rs13211166	BTN3A2	cis	Muscle Skeletal	GTEx
rs13211166	BTN3A2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:27261000-27266400	Active TSS	ES-I3 Cell Line	embryonic stem cell
2	chr6:27261000-27266400	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
3	chr6:27261000-27266800	Active TSS	A549	lung
4	chr6:27261400-27266400	Active TSS	H9 Cell Line	embryonic stem cell
5	chr6:27261400-27266400	Active TSS	HUES6 Cell Line	embryonic stem cell
6	chr6:27261400-27266400	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
7	chr6:27262600-27266400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr6:27262800-27266000	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr6:27263000-27266400	Active TSS	H1 Cell Line	embryonic stem cell
10	chr6:27263200-27266000	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr6:27263400-27266200	Active TSS	ES-WA7 Cell Line	embryonic stem cell
12	chr6:27263400-27266200	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr6:27263400-27266200	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
14	chr6:27264000-27266000	Active TSS	NHEK	skin
15	chr6:27264000-27266200	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr6:27264400-27266000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr6:27264600-27266000	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr6:27265000-27266000	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr6:27265200-27266000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr6:27265200-27266400	Active TSS	HUES48 Cell Line	embryonic stem cell
21	chr6:27265400-27266000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr6:27265400-27266200	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr6:27265400-27266200	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr6:27265600-27266400	Active TSS	iPS-15b Cell Line	embryonic stem cell
25	chr6:27265600-27266400	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
26	chr6:27265800-27266000	Enhancers	HepG2	liver
27	chr6:27265800-27266200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr6:27265800-27266200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr6:27265800-27266400	Flanking Active TSS	K562	blood

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