Variant report

Variant	rs58025624
Chromosome Location	chr3:141320585-141320586
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	SETDB1	chr3:141320570-141321240	U2OS	brain:	n/a	n/a
2	POLR2A	chr3:141319106-141320638	K562	blood:	n/a	n/a
3	KAP1	chr3:141320420-141320947	K562	blood:	n/a	n/a
4	CBX3	chr3:141320575-141320914	K562	blood:	n/a	n/a

Variant related genes	Relation type
YWHAQP6	TF binding region

Extended variants
information (count: 23 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs1493210	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16851483	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2035935	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2035936	0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2312193	0.88[ASN][1000 genomes]
rs2639997	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2640017	0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs295299	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs295300	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs295321	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs295324	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34558081	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3732869	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3806648	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3821709	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4683610	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4683612	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs60654199	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs61750362	0.84[AFR][1000 genomes]
rs73871847	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7627774	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7627807	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949709	chr3:141295050-142178144	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs58025624	ZBTB38	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:109 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:141265200-141336200	Weak transcription	Psoas Muscle	Psoas
2	chr3:141275800-141320600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr3:141276400-141329400	Weak transcription	Small Intestine	intestine
4	chr3:141277200-141341400	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr3:141281800-141329400	Weak transcription	Fetal Brain Male	brain
6	chr3:141295800-141320800	Strong transcription	Primary T helper cells PMA-I stimulated	--
7	chr3:141297600-141325000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr3:141298000-141328400	Weak transcription	Hela-S3	cervix
9	chr3:141298600-141326800	Weak transcription	Fetal Heart	heart
10	chr3:141299800-141321000	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr3:141300200-141328800	Weak transcription	K562	blood
12	chr3:141300600-141324600	Weak transcription	Gastric	stomach
13	chr3:141301600-141327000	Weak transcription	Brain Angular Gyrus	brain
14	chr3:141301800-141321000	Weak transcription	Brain Substantia Nigra	brain
15	chr3:141302000-141326800	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr3:141305200-141329000	Weak transcription	NHLF	lung
17	chr3:141306200-141321000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
18	chr3:141306200-141328800	Weak transcription	Right Ventricle	heart
19	chr3:141307400-141328400	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr3:141310400-141327000	Weak transcription	Fetal Kidney	kidney
21	chr3:141310400-141327200	Weak transcription	HepG2	liver
22	chr3:141310800-141321200	Weak transcription	Rectal Smooth Muscle	rectum
23	chr3:141313200-141344000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr3:141313400-141328800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr3:141315000-141328800	Weak transcription	Colonic Mucosa	Colon
26	chr3:141315200-141321000	Weak transcription	H1 Cell Line	embryonic stem cell
27	chr3:141315200-141328800	Weak transcription	Stomach Smooth Muscle	stomach
28	chr3:141315800-141326800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
29	chr3:141315800-141328600	Weak transcription	Brain Anterior Caudate	brain
30	chr3:141316200-141326800	Weak transcription	HMEC	breast
31	chr3:141316200-141327400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
32	chr3:141316400-141327000	Weak transcription	Liver	Liver
33	chr3:141317000-141321400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
34	chr3:141317400-141321600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr3:141318200-141322800	Strong transcription	Primary T cells from cord blood	blood
36	chr3:141318400-141321400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr3:141318400-141322800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr3:141318600-141320600	Strong transcription	Osteobl	bone
39	chr3:141318600-141322000	Strong transcription	HSMM	muscle
40	chr3:141318800-141322800	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
41	chr3:141318800-141326000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr3:141319000-141321800	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
43	chr3:141319000-141321800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr3:141319000-141322000	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
45	chr3:141319000-141322400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr3:141319200-141320800	ZNF genes & repeats	Primary B cells from peripheral blood	blood
47	chr3:141319200-141321800	ZNF genes & repeats	Primary hematopoietic stem cells	blood
48	chr3:141319200-141321800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
49	chr3:141319200-141321800	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr3:141319200-141321800	ZNF genes & repeats	Fetal Intestine Small	intestine

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