Variant report

Variant	rs4886870
Chromosome Location	chr15:77827471-77827472
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:77824813..77828626-chr15:77832957..77835709,3	K562	blood:
2	chr15:77827126..77831240-chr15:77834209..77836612,4	K562	blood:

Extended variants
information (count: 23 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs11855272	0.82[ASN][1000 genomes]
rs1317320	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16968893	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16968895	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16968897	0.80[ASN][1000 genomes]
rs16968900	0.80[ASN][1000 genomes]
rs17394448	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2867303	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4243046	0.82[ASN][1000 genomes]
rs74026930	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs74026931	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs74026932	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs74026933	0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7495653	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs869302	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs907387	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 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	nsv570139	chr15:77762493-77865459	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
5	nsv570140	chr15:77787469-77851535	Flanking Active TSS Weak transcription Active TSS Enhancers Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	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
7	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

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs4886870	TSPAN3	Cis_1M	lymphoblastoid	RTeQTL
rs4886870	TSPAN3	cis	Whole Blood	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:77819600-77828600	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr15:77819800-77831000	Weak transcription	Gastric	stomach
3	chr15:77821000-77831200	Weak transcription	Esophagus	oesophagus
4	chr15:77821600-77830200	Weak transcription	Left Ventricle	heart
5	chr15:77821800-77827600	Weak transcription	Pancreas	Pancrea
6	chr15:77822000-77833600	Weak transcription	Right Atrium	heart
7	chr15:77824800-77829400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr15:77825200-77827800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
9	chr15:77825800-77827600	Enhancers	HepG2	liver
10	chr15:77825800-77828600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr15:77825800-77828600	Weak transcription	Brain Substantia Nigra	brain
12	chr15:77825800-77830200	Weak transcription	Right Ventricle	heart
13	chr15:77825800-77831000	Weak transcription	Stomach Mucosa	stomach
14	chr15:77826400-77829800	Weak transcription	Fetal Brain Male	brain
15	chr15:77826600-77829200	Weak transcription	Fetal Brain Female	brain
16	chr15:77826800-77827800	Enhancers	Skeletal Muscle Female	skeletal muscle
17	chr15:77826800-77828400	Weak transcription	Brain Hippocampus Middle	brain
18	chr15:77826800-77828600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
19	chr15:77826800-77828600	Weak transcription	H1 Cell Line	embryonic stem cell
20	chr15:77826800-77828600	Weak transcription	Brain Angular Gyrus	brain
21	chr15:77827000-77828200	Weak transcription	Fetal Intestine Small	intestine
22	chr15:77827000-77828400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr15:77827000-77828400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr15:77827000-77828400	Weak transcription	HUES6 Cell Line	embryonic stem cell
25	chr15:77827000-77828400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
26	chr15:77827000-77828400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr15:77827000-77828400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
28	chr15:77827000-77828400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr15:77827000-77828400	Weak transcription	Brain Anterior Caudate	brain
30	chr15:77827000-77828400	Weak transcription	Fetal Intestine Large	intestine
31	chr15:77827000-77828600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr15:77827000-77828600	Weak transcription	HUES64 Cell Line	embryonic stem cell
33	chr15:77827000-77828600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
34	chr15:77827000-77828600	Weak transcription	Brain Germinal Matrix	brain
35	chr15:77827000-77828800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
36	chr15:77827000-77829000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
37	chr15:77827000-77829600	Weak transcription	HUES48 Cell Line	embryonic stem cell
38	chr15:77827000-77829800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
39	chr15:77827000-77833200	Weak transcription	HSMMtube	muscle
40	chr15:77827000-77835400	Weak transcription	Psoas Muscle	Psoas
41	chr15:77827000-77845400	Weak transcription	Fetal Kidney	kidney
42	chr15:77827200-77828400	Weak transcription	Cortex derived primary cultured neurospheres	brain
43	chr15:77827200-77828400	Weak transcription	Fetal Lung	lung
44	chr15:77827200-77828400	Weak transcription	Placenta	Placenta
45	chr15:77827200-77828600	Weak transcription	Fetal Heart	heart
46	chr15:77827200-77828600	Weak transcription	Fetal Stomach	stomach
47	chr15:77827200-77830200	Weak transcription	Skeletal Muscle Male	skeletal muscle
48	chr15:77827400-77828400	Weak transcription	Fetal Muscle Leg	muscle
49	chr15:77827400-77828400	Weak transcription	Spleen	Spleen
50	chr15:77827400-77829400	Weak transcription	Fetal Muscle Trunk	muscle

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