Variant report

Variant	rs868298
Chromosome Location	chr15:77873672-77873673
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:77867409..77870567-chr15:77872173..77875130,4	K562	blood:
2	chr15:77872896..77874517-chr15:77881445..77883437,2	K562	blood:

Extended variants
information (count: 31 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs1104815	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11630235	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11630856	0.89[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs11631894	0.90[EUR][1000 genomes]
rs11633811	0.91[EUR][1000 genomes]
rs11635834	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11638674	0.82[EUR][1000 genomes]
rs12593629	0.81[ASN][1000 genomes]
rs2003883	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2667757	0.80[ASN][1000 genomes]
rs4286073	0.89[EUR][1000 genomes]
rs4886517	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4886879	0.88[AMR][1000 genomes]
rs4886880	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4886882	0.94[EUR][1000 genomes]
rs4886884	0.84[EUR][1000 genomes]
rs4886885	0.84[EUR][1000 genomes]
rs4886886	0.84[EUR][1000 genomes]
rs7171141	0.89[EUR][1000 genomes]
rs8039399	0.96[EUR][1000 genomes]
rs8040227	0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs964990	0.80[AMR][1000 genomes];0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1040852	chr15:77160237-78137541	Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv916323	chr15:77485765-78121259	Enhancers Strong transcription Weak transcription Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv1043284	chr15:77740632-77884026	Weak transcription Strong transcription Genic enhancers Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
4	nsv833060	chr15:77816654-78035204	Weak transcription Bivalent Enhancer Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
5	esv1806097	chr15:77817889-78301377	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
6	nsv904415	chr15:77845959-77943935	Weak transcription Flanking Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv904416	chr15:77845959-77967416	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
8	nsv904417	chr15:77851535-77935992	Weak transcription Flanking Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
9	nsv904418	chr15:77851535-77963887	Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs868298	TSPAN3	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:77862200-77875000	Weak transcription	Left Ventricle	heart
2	chr15:77868400-77874400	Weak transcription	Fetal Intestine Small	intestine
3	chr15:77868400-77874600	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr15:77868600-77874600	Weak transcription	Duodenum Mucosa	Duodenum
5	chr15:77870200-77876600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr15:77870400-77876600	Weak transcription	Fetal Heart	heart
7	chr15:77870600-77875200	Weak transcription	Right Ventricle	heart
8	chr15:77871000-77874600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr15:77871400-77876600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr15:77871600-77874600	Weak transcription	Brain Germinal Matrix	brain
11	chr15:77872400-77873800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr15:77872800-77875800	Bivalent Enhancer	Fetal Muscle Trunk	muscle
13	chr15:77873000-77874800	Enhancers	Breast Myoepithelial Primary Cells	Breast
14	chr15:77873000-77874800	Enhancers	Brain Angular Gyrus	brain
15	chr15:77873000-77874800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
16	chr15:77873000-77875400	Enhancers	Brain Hippocampus Middle	brain
17	chr15:77873000-77875800	Enhancers	Fetal Muscle Leg	muscle
18	chr15:77873200-77874600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr15:77873200-77874600	Enhancers	Brain Cingulate Gyrus	brain
20	chr15:77873400-77874600	Enhancers	Cortex derived primary cultured neurospheres	brain
21	chr15:77873400-77874600	Enhancers	Fetal Brain Male	brain
22	chr15:77873400-77875200	Enhancers	Stomach Mucosa	stomach
23	chr15:77873600-77873800	Bivalent Enhancer	Muscle Satellite Cultured Cells	--
24	chr15:77873600-77873800	Enhancers	Brain Substantia Nigra	brain
25	chr15:77873600-77874000	Enhancers	Primary B cells from peripheral blood	blood
26	chr15:77873600-77874000	Flanking Active TSS	Brain Anterior Caudate	brain
27	chr15:77873600-77874000	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
28	chr15:77873600-77874000	Enhancers	HSMMtube	muscle
29	chr15:77873600-77874200	Enhancers	Fetal Brain Female	brain
30	chr15:77873600-77874200	Enhancers	Skeletal Muscle Male	skeletal muscle
31	chr15:77873600-77874600	Enhancers	Stomach Smooth Muscle	stomach

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