Variant report

Variant	rs12562145
Chromosome Location	chr1:58066509-58066510
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs11808213	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12411177	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1534047	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17470462	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1829985	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2030719	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2140705	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4912266	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61769601	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6587785	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72908555	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74077726	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7528953	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7532306	0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817216	chr1:57801783-58130775	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1001771	chr1:57837089-58068175	Bivalent/Poised TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv1012555	chr1:57950355-58103389	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv1015057	chr1:57976993-58793962	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv530017	chr1:58002290-58669736	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv523574	chr1:58018103-58087789	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv871684	chr1:58021206-58096379	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:58061400-58067200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
2	chr1:58063000-58069600	Weak transcription	Stomach Mucosa	stomach
3	chr1:58063800-58066600	Enhancers	Cortex derived primary cultured neurospheres	brain
4	chr1:58064000-58068200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr1:58064200-58067200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr1:58064200-58067600	Enhancers	iPS-15b Cell Line	embryonic stem cell
7	chr1:58064400-58066600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr1:58065800-58071600	Enhancers	ES-I3 Cell Line	embryonic stem cell
9	chr1:58066000-58066600	Enhancers	Fetal Heart	heart
10	chr1:58066000-58066800	Enhancers	HUES6 Cell Line	embryonic stem cell
11	chr1:58066000-58068400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr1:58066000-58069000	Weak transcription	Fetal Stomach	stomach
13	chr1:58066000-58069400	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr1:58066000-58077200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr1:58066000-58089000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr1:58066200-58067000	Enhancers	HUES48 Cell Line	embryonic stem cell
17	chr1:58066200-58067000	Enhancers	iPS-18 Cell Line	embryonic stem cell
18	chr1:58066200-58069600	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr1:58066400-58066600	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
20	chr1:58066400-58066600	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
21	chr1:58066400-58069200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr1:58066400-58069200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr1:58066400-58071000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
24	chr1:58066400-58089400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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