Variant report

Variant	rs13217984
Chromosome Location	chr6:28139710-28139711
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:28139078..28141804-chr6:28165060..28166721,2	K562	blood:
2	chr6:28130107..28132754-chr6:28139085..28141049,2	K562	blood:
3	chr6:28135297..28137583-chr6:28137642..28140469,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZNF192-3	chr6:28138623-28140299	NONHSAT108445

Variant related genes	Relation type
ENSG00000226314	Chromatin interaction

Extended variants
information (count: 68 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs13190888	0.81[EUR][1000 genomes]
rs13191786	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs13195291	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13197176	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13197574	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13197633	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13198809	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs13200214	0.84[EUR][1000 genomes]
rs13201308	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13203816	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13204012	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs13205211	0.85[EUR][1000 genomes]
rs13205911	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13207345	0.85[EUR][1000 genomes]
rs13208096	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs13211507	0.85[EUR][1000 genomes]
rs13213152	0.85[EUR][1000 genomes]
rs13213986	0.82[EUR][1000 genomes]
rs13214023	0.85[EUR][1000 genomes]
rs2232423	0.82[EUR][1000 genomes]
rs2232426	0.82[EUR][1000 genomes]
rs2232429	0.82[EUR][1000 genomes]
rs33932084	0.84[EUR][1000 genomes]
rs34166054	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34218844	0.85[EUR][1000 genomes]
rs34243448	0.85[EUR][1000 genomes]
rs34371502	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34396849	0.85[EUR][1000 genomes]
rs34505829	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34546986	0.82[EUR][1000 genomes]
rs34588114	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34661125	0.85[EUR][1000 genomes]
rs34662244	0.82[EUR][1000 genomes]
rs34691223	0.85[EUR][1000 genomes]
rs34765154	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34832585	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34871267	0.82[EUR][1000 genomes]
rs34878803	0.85[EUR][1000 genomes]
rs34950484	0.85[EUR][1000 genomes]
rs35001169	0.93[EUR][1000 genomes]
rs35016036	0.82[EUR][1000 genomes]
rs35017208	0.85[EUR][1000 genomes]
rs35030260	0.84[EUR][1000 genomes]
rs35072899	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs35098436	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35345226	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35353359	0.85[EUR][1000 genomes]
rs35656932	0.93[EUR][1000 genomes]
rs35744819	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs35749575	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35781323	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35883476	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs35902873	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35952432	0.90[EUR][1000 genomes]
rs36092177	0.82[EUR][1000 genomes]
rs56075693	0.85[EUR][1000 genomes]
rs56189111	0.85[EUR][1000 genomes]
rs66886492	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs67297533	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs67340775	0.84[EUR][1000 genomes]
rs67981811	0.82[EUR][1000 genomes]
rs67998226	0.85[EUR][1000 genomes]
rs68188794	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs71559070	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71559072	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72846780	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72846794	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72854513	0.85[EUR][1000 genomes]

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs13217984	ZFP57	Cis_chr	lymphoblastoid	RTeQTL
rs13217984	BTN3A2///BTN3A3	Cis_chr	lymphoblastoid	RTeQTL
rs13217984	AL022393.7	cis	Muscle Skeletal	GTEx
rs13217984	BTN3A2	Cis_chr	lymphoblastoid	RTeQTL

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28129800-28142200	Weak transcription	Aorta	Aorta
2	chr6:28129800-28145400	Weak transcription	Brain Angular Gyrus	brain
3	chr6:28130000-28141400	Weak transcription	Right Ventricle	heart
4	chr6:28130000-28142600	Weak transcription	Brain Hippocampus Middle	brain
5	chr6:28130200-28140600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr6:28130200-28141800	Weak transcription	Fetal Kidney	kidney
7	chr6:28130200-28142800	Weak transcription	Left Ventricle	heart
8	chr6:28130400-28140200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr6:28130400-28140800	Weak transcription	Duodenum Smooth Muscle	Duodenum
10	chr6:28130400-28142600	Weak transcription	Psoas Muscle	Psoas
11	chr6:28130600-28139800	Weak transcription	Skeletal Muscle Male	skeletal muscle
12	chr6:28130600-28141800	Weak transcription	Stomach Smooth Muscle	stomach
13	chr6:28133600-28140800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr6:28135600-28140200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr6:28135800-28141600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr6:28137400-28140800	Strong transcription	Brain Cingulate Gyrus	brain
17	chr6:28138000-28145600	Weak transcription	K562	blood
18	chr6:28138200-28140000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr6:28138800-28141000	Strong transcription	Skeletal Muscle Female	skeletal muscle
20	chr6:28139000-28144400	Weak transcription	Brain Anterior Caudate	brain
21	chr6:28139400-28141800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
22	chr6:28139400-28145600	Weak transcription	Brain Inferior Temporal Lobe	brain

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