Variant report

Variant	rs12252418
Chromosome Location	chr10:38409880-38409881
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs11011446	1.00[AMR][1000 genomes]
rs12241800	1.00[AMR][1000 genomes]
rs12245828	1.00[AMR][1000 genomes]
rs12246655	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs12252272	1.00[AMR][1000 genomes]
rs12260004	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs28800635	1.00[AMR][1000 genomes]
rs35642112	1.00[AMR][1000 genomes]
rs643259	1.00[AMR][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	nsv895030	chr10:37715737-38674609	Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv1045684	chr10:37765361-38426204	Weak transcription ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Active TSS Genic 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	44 gene(s)	inside rSNPs	diseases
3	nsv540564	chr10:37765361-38426204	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	nsv1040704	chr10:37940024-38451917	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
5	nsv1051121	chr10:38155991-38426204	Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
6	nsv540565	chr10:38155991-38426204	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
7	nsv540566	chr10:38301001-38680127	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
8	nsv550419	chr10:38311777-38501654	Enhancers Strong transcription Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
9	nsv6465	chr10:38377662-38422125	Weak transcription Strong transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
10	nsv895031	chr10:38402789-38464886	ZNF genes & repeats Enhancers Weak transcription Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:38400600-38416600	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
2	chr10:38400800-38415000	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr10:38401000-38411200	ZNF genes & repeats	Dnd41	blood
4	chr10:38401000-38411400	ZNF genes & repeats	Brain Hippocampus Middle	brain
5	chr10:38401200-38411200	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr10:38401800-38411200	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr10:38401800-38413800	ZNF genes & repeats	Adipose Nuclei	Adipose
8	chr10:38402000-38412800	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
9	chr10:38402200-38410000	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
10	chr10:38402200-38411000	ZNF genes & repeats	Fetal Brain Female	brain
11	chr10:38402200-38411200	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr10:38402200-38413200	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
13	chr10:38402200-38413200	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr10:38402200-38413400	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr10:38402200-38413400	ZNF genes & repeats	Duodenum Mucosa	Duodenum
16	chr10:38402200-38413600	ZNF genes & repeats	Liver	Liver
17	chr10:38402400-38410000	ZNF genes & repeats	Primary T cells effector/memory enriched fromperipheralblood	blood
18	chr10:38402400-38411000	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr10:38402400-38411200	ZNF genes & repeats	Primary T cells from cord blood	blood
20	chr10:38402400-38411200	ZNF genes & repeats	Colon Smooth Muscle	Colon
21	chr10:38402400-38411400	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
22	chr10:38402600-38410200	ZNF genes & repeats	Primary T helper memory cells from peripheral blood 1	blood
23	chr10:38403800-38412800	ZNF genes & repeats	Psoas Muscle	Psoas
24	chr10:38404000-38411000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr10:38405800-38410200	ZNF genes & repeats	Primary T killer memory cells from peripheral blood	blood
26	chr10:38409200-38410600	Weak transcription	Fetal Heart	heart
27	chr10:38409800-38413400	ZNF genes & repeats	Brain Germinal Matrix	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links