Variant report

Variant	rs2968027
Chromosome Location	chr19:21549055-21549056
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10410060	1.00[AFR][1000 genomes]
rs10415327	1.00[AFR][1000 genomes]
rs10416025	0.85[YRI][hapmap];1.00[AFR][1000 genomes]
rs10419810	0.85[YRI][hapmap]
rs10422958	0.90[AFR][1000 genomes]
rs10424292	1.00[AFR][1000 genomes]
rs1613729	0.86[AFR][1000 genomes]
rs1678829	0.86[AFR][1000 genomes]
rs1678832	1.00[AFR][1000 genomes]
rs1762577	0.86[AFR][1000 genomes]
rs1781864	0.86[AFR][1000 genomes]
rs1781872	0.87[YRI][hapmap]
rs2359146	0.85[YRI][hapmap]
rs2434995	1.00[AFR][1000 genomes]
rs2562433	1.00[AFR][1000 genomes]
rs2650755	0.85[YRI][hapmap]
rs2650846	0.85[YRI][hapmap]
rs28816529	1.00[AFR][1000 genomes]
rs2914632	0.85[YRI][hapmap]
rs2914641	1.00[AFR][1000 genomes]
rs2914642	1.00[AFR][1000 genomes]
rs2928212	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs2968087	0.90[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 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	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
5	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
6	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
7	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
8	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
9	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
10	nsv578952	chr19:21535707-21868584	Genic enhancers Active TSS ZNF genes & repeats Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
11	esv1793996	chr19:21544242-21609607	Active TSS Strong transcription ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
12	esv1801985	chr19:21544242-21609607	ZNF genes & repeats Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
13	esv1844586	chr19:21544242-21609607	Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:21542400-21550200	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr19:21542400-21550400	Weak transcription	Lung	lung
3	chr19:21542400-21555400	Weak transcription	Brain Cingulate Gyrus	brain
4	chr19:21542400-21555400	Weak transcription	Psoas Muscle	Psoas
5	chr19:21542400-21555600	Weak transcription	Colonic Mucosa	Colon
6	chr19:21542400-21557800	Weak transcription	Gastric	stomach
7	chr19:21542400-21562200	Weak transcription	Colon Smooth Muscle	Colon
8	chr19:21542400-21562200	Weak transcription	Fetal Heart	heart
9	chr19:21542400-21563200	Weak transcription	Brain Substantia Nigra	brain
10	chr19:21542600-21550400	Weak transcription	Esophagus	oesophagus
11	chr19:21542600-21550400	Weak transcription	Skeletal Muscle Male	skeletal muscle
12	chr19:21542600-21550400	Weak transcription	Stomach Smooth Muscle	stomach
13	chr19:21542600-21555000	Weak transcription	Brain Hippocampus Middle	brain
14	chr19:21542600-21555000	Weak transcription	Brain Inferior Temporal Lobe	brain
15	chr19:21542600-21555000	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr19:21542600-21555200	Weak transcription	Brain Anterior Caudate	brain
17	chr19:21542600-21555600	Weak transcription	Rectal Smooth Muscle	rectum
18	chr19:21542600-21561400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr19:21542600-21561400	Weak transcription	Pancreas	Pancrea
20	chr19:21542800-21550400	Weak transcription	Aorta	Aorta
21	chr19:21542800-21555000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr19:21542800-21561400	Weak transcription	Right Ventricle	heart
23	chr19:21543000-21549200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr19:21543000-21549800	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr19:21543000-21550400	Weak transcription	Brain Angular Gyrus	brain
26	chr19:21543000-21553200	Weak transcription	Osteobl	bone
27	chr19:21543000-21555600	Weak transcription	Pancreatic Islets	Pancreatic Islet
28	chr19:21543000-21556600	Weak transcription	HepG2	liver
29	chr19:21543000-21563000	Weak transcription	NHLF	lung
30	chr19:21543000-21566600	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr19:21543000-21566800	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr19:21543200-21550000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
33	chr19:21543200-21555200	ZNF genes & repeats	Primary monocytes fromperipheralblood	blood
34	chr19:21543200-21555400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
35	chr19:21543200-21555800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
36	chr19:21543200-21556600	ZNF genes & repeats	GM12878-XiMat	blood
37	chr19:21543200-21557000	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr19:21543400-21552000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
39	chr19:21543400-21552800	Strong transcription	Fetal Muscle Leg	muscle
40	chr19:21543400-21555400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
41	chr19:21543400-21560000	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
42	chr19:21543400-21560400	ZNF genes & repeats	Fetal Brain Female	brain
43	chr19:21543400-21566400	ZNF genes & repeats	Brain Germinal Matrix	brain
44	chr19:21543400-21570600	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
45	chr19:21543600-21555000	Strong transcription	HUES48 Cell Line	embryonic stem cell
46	chr19:21543600-21563200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
47	chr19:21543600-21566400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
48	chr19:21543800-21551400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
49	chr19:21543800-21552000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
50	chr19:21543800-21556800	Strong transcription	HUES64 Cell Line	embryonic stem cell

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