Variant report

Variant	rs651454
Chromosome Location	chr19:21497910-21497911
allele	C/T
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	TCF12	chr19:21497277-21498003	SK-N-SH	brain:	n/a	n/a
2	TCF12	chr19:21497332-21498005	SK-N-SH	brain:	n/a	n/a
3	JUND	chr19:21497198-21498190	SK-N-SH	brain:	n/a	chr19:21497585-21497594 chr19:21497584-21497595 chr19:21497584-21497596 chr19:21497586-21497594 chr19:21497585-21497595 chr19:21497586-21497593

Variant related genes	Relation type
ENSG00000268322	TF binding region

Extended variants
information (count: 90 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:80)

rs_ID	r²[population]
rs1114305	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1875256	0.86[ASN][1000 genomes]
rs2086319	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2434996	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2562402	0.92[EUR][1000 genomes]
rs2562409	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2562415	0.92[EUR][1000 genomes]
rs2562438	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2619823	0.82[ASN][1000 genomes]
rs2650797	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2650798	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2650842	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2650849	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2650851	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs279804	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs279805	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs279810	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs279811	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs279812	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs279814	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs279815	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs279816	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs279818	0.80[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs279819	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs279820	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2914626	0.92[EUR][1000 genomes]
rs2914627	0.92[EUR][1000 genomes]
rs2914645	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2928188	0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2928209	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2928211	0.84[ASN][1000 genomes]
rs2928216	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2928218	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2937157	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2937174	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2968022	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2968023	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2968024	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2968040	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2968041	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2968045	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2968046	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2968066	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2968082	0.92[EUR][1000 genomes]
rs2968086	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs472472	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs475162	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs476376	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs478046	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs487991	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs489613	0.94[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs489845	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs492271	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs499445	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs501563	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs504026	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs508656	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs511469	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs516519	0.90[ASN][1000 genomes]
rs527060	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs537114	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs540637	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs540714	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs541639	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs547516	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs555596	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs571937	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs583680	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs586144	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs598959	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs600186	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs609806	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs612877	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs627522	0.89[ASN][1000 genomes]
rs631436	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs632221	0.86[ASN][1000 genomes]
rs661453	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs8102235	0.92[EUR][1000 genomes]
rs8112775	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs924485	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3518033	chr19:21278465-21747567	Strong transcription Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	esv3518034	chr19:21278465-21747567	ZNF genes & repeats Weak transcription Genic enhancers Active TSS Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
3	esv3414204	chr19:21301761-21839451	ZNF genes & repeats Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	nsv911416	chr19:21388995-21548211	Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
5	nsv911417	chr19:21388995-21564001	Weak transcription Strong transcription Active TSS ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
6	esv3325271	chr19:21445407-21792817	Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers Enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
7	nsv911420	chr19:21454672-21613397	ZNF genes & repeats Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
8	esv2751783	chr19:21465822-21726337	Strong transcription ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
9	esv3363678	chr19:21483148-21756908	Strong transcription Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
10	nsv963023	chr19:21491992-21570395	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:21473800-21510400	Weak transcription	Fetal Heart	heart
2	chr19:21474800-21509800	Weak transcription	Fetal Brain Male	brain
3	chr19:21475200-21511200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr19:21478400-21500600	Weak transcription	Psoas Muscle	Psoas
5	chr19:21478600-21499200	Weak transcription	HMEC	breast
6	chr19:21481000-21500600	Weak transcription	NHLF	lung
7	chr19:21481600-21500000	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr19:21481600-21500400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr19:21481600-21505600	Weak transcription	K562	blood
10	chr19:21484400-21511000	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr19:21485400-21508600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr19:21485400-21511200	Weak transcription	Gastric	stomach
13	chr19:21485600-21504200	Weak transcription	Pancreas	Pancrea
14	chr19:21486400-21500400	Weak transcription	Spleen	Spleen
15	chr19:21487600-21508600	Weak transcription	Fetal Kidney	kidney
16	chr19:21487600-21511200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
17	chr19:21487800-21498200	Weak transcription	HUVEC	blood vessel
18	chr19:21488000-21500600	Weak transcription	Left Ventricle	heart
19	chr19:21488000-21505600	Weak transcription	Right Ventricle	heart
20	chr19:21488200-21511200	Weak transcription	Aorta	Aorta
21	chr19:21488400-21500000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr19:21489000-21510800	Weak transcription	NH-A	brain
23	chr19:21489600-21500600	Weak transcription	Skeletal Muscle Male	skeletal muscle
24	chr19:21489600-21506000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
25	chr19:21489600-21509000	Weak transcription	Placenta	Placenta
26	chr19:21489800-21500800	Weak transcription	H1 Cell Line	embryonic stem cell
27	chr19:21489800-21504000	Weak transcription	Osteobl	bone
28	chr19:21490200-21508800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
29	chr19:21490200-21509200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr19:21492200-21500600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr19:21492400-21500000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
32	chr19:21492400-21500000	Weak transcription	Cortex derived primary cultured neurospheres	brain
33	chr19:21492400-21500600	Weak transcription	Adipose Nuclei	Adipose
34	chr19:21492400-21500800	Weak transcription	Pancreatic Islets	Pancreatic Islet
35	chr19:21492400-21503200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr19:21492400-21506200	Weak transcription	Fetal Lung	lung
37	chr19:21492400-21508600	Weak transcription	Muscle Satellite Cultured Cells	--
38	chr19:21492400-21508800	Weak transcription	Fetal Intestine Large	intestine
39	chr19:21492400-21509000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
40	chr19:21492600-21498000	Weak transcription	Brain Germinal Matrix	brain
41	chr19:21492600-21498200	Weak transcription	Rectal Mucosa Donor 29	rectum
42	chr19:21492600-21502800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
43	chr19:21492600-21509000	Weak transcription	Fetal Muscle Leg	muscle
44	chr19:21492800-21498000	Weak transcription	Primary hematopoietic stem cells	blood
45	chr19:21492800-21500600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
46	chr19:21492800-21500800	Weak transcription	HUES64 Cell Line	embryonic stem cell
47	chr19:21492800-21500800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
48	chr19:21492800-21506600	Weak transcription	Fetal Thymus	thymus
49	chr19:21493000-21500000	Weak transcription	Primary B cells from peripheral blood	blood
50	chr19:21493000-21500000	Weak transcription	Primary T helper naive cells from peripheral blood	blood

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